Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 78 of 120
Found at i:22863077 original size:12 final size:11
Alignment explanation
Indices: 22863060--22863093 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
22863050 TTGTTTCTTT
22863060 TTTATTATTTTA
1 TTTATT-TTTTA
22863072 TTTATTTATTTA
1 TTTATTT-TTTA
22863084 TTTATTTTTT
1 TTTATTTTTT
22863094 TCACTGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:22866989 original size:11 final size:11
Alignment explanation
Indices: 22866973--22866999 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
22866963 TGAAATCAAG
22866973 TATTTTCATAA
1 TATTTTCATAA
22866984 TATTTTCATAA
1 TATTTTCATAA
22866995 TATTT
1 TATTT
22867000 AGTTACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTTCATAA
Found at i:22873055 original size:80 final size:79
Alignment explanation
Indices: 22872922--22873119 Score: 276
Period size: 80 Copynumber: 2.5 Consensus size: 79
22872912 TTCGTAAACA
* * * * *
22872922 AATAAATAGCAGGCTTTGAGCCGGT-AAGTATATAGTAGGCCTTGAGCCGGTGAATAATTAGT-A
1 AATAAATAGCAGGCTTCGAGCCGGTGAATTATATAGCAGGCCTTGAGCCAGTGAATAAATA-TAA
*
22872985 GGCTTCGAGCCGGTG
65 AGCTTCGAGCCGGTG
*
22873000 AATAAATAGCAGGCTTCGAGCTGGTGAATATATATAGCAGGCCTTGAGCCAGTGAATAAATATAA
1 AATAAATAGCAGGCTTCGAGCCGGTGAAT-TATATAGCAGGCCTTGAGCCAGTGAATAAATATAA
*
22873065 AGCTTTGAGCCGGTG
65 AGCTTCGAGCCGGTG
*
22873080 AATAAATAGCAGGCTTCGAGCCAGTG-ATTATATAGCAGGC
1 AATAAATAGCAGGCTTCGAGCCGGTGAATTATATAGCAGGC
22873120 TTCGTGCTGG
Statistics
Matches: 107, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
78 35 0.33
79 5 0.05
80 67 0.63
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (79 bp):
AATAAATAGCAGGCTTCGAGCCGGTGAATTATATAGCAGGCCTTGAGCCAGTGAATAAATATAAA
GCTTCGAGCCGGTG
Found at i:22873120 original size:26 final size:26
Alignment explanation
Indices: 22872922--22873123 Score: 212
Period size: 26 Copynumber: 7.7 Consensus size: 26
22872912 TTCGTAAACA
*
22872922 AATAAATAGCAGGCTTTGAGCCGGT-
1 AATAAATAGCAGGCTTCGAGCCGGTG
* *
22872947 AAGTATATAGTAGGCCTT-GAGCCGGTG
1 AA-TAAATAGCAGG-CTTCGAGCCGGTG
* *
22872974 AATAATTAGTAGGCTTCGAGCCGGTG
1 AATAAATAGCAGGCTTCGAGCCGGTG
*
22873000 AATAAATAGCAGGCTTCGAGCTGGTG
1 AATAAATAGCAGGCTTCGAGCCGGTG
*
22873026 AATATATATAGCAGGCCTT-GAGCCAGTG
1 AATA-A-ATAGCAGG-CTTCGAGCCGGTG
** * *
22873054 AATAAATATAAAGCTTTGAGCCGGTG
1 AATAAATAGCAGGCTTCGAGCCGGTG
*
22873080 AATAAATAGCAGGCTTCGAGCCAGTG
1 AATAAATAGCAGGCTTCGAGCCGGTG
* *
22873106 ATTATATAGCAGGCTTCG
1 AATAAATAGCAGGCTTCG
22873124 TGCTGGTGTT
Statistics
Matches: 149, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
25 8 0.05
26 112 0.75
27 7 0.05
28 19 0.13
29 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (26 bp):
AATAAATAGCAGGCTTCGAGCCGGTG
Found at i:22880629 original size:17 final size:17
Alignment explanation
Indices: 22880596--22880658 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
22880586 CATTAAATTA
22880596 CAATGACAAATGAAAATG
1 CAATGAC-AATGAAAATG
*
22880614 CAATGACAATGCAAATG
1 CAATGACAATGAAAATG
* * *
22880631 CAGTGGCAATTAAAATG
1 CAATGACAATGAAAATG
*
22880648 TAATGACAATG
1 CAATGACAATG
22880659 GGAATGTGAT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
17 29 0.81
18 7 0.19
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.21
Consensus pattern (17 bp):
CAATGACAATGAAAATG
Found at i:22892950 original size:15 final size:16
Alignment explanation
Indices: 22892919--22892962 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
22892909 AATTTTTGCC
22892919 TTGTTTTTCATTATTT
1 TTGTTTTTCATTATTT
22892935 TTGTTTTT-ATT-TTT
1 TTGTTTTTCATTATTT
22892949 TTGCTTTTATCATT
1 TTG-TTTT-TCATT
22892963 TGCTTGAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.24
15 7 0.28
16 9 0.36
17 3 0.12
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.75
Consensus pattern (16 bp):
TTGTTTTTCATTATTT
Found at i:22892951 original size:14 final size:15
Alignment explanation
Indices: 22892919--22892963 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
22892909 AATTTTTGCC
22892919 TTGTTTTTCATTATTT
1 TTGTTTTT-ATTATTT
22892935 TTGTTTTTATT-TTT
1 TTGTTTTTATTATTT
* *
22892949 TTGCTTTTATCATTT
1 TTGTTTTTATTATTT
22892964 GCTTGAGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 12 0.46
15 6 0.23
16 8 0.31
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.76
Consensus pattern (15 bp):
TTGTTTTTATTATTT
Found at i:22895335 original size:21 final size:20
Alignment explanation
Indices: 22895302--22895343 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
22895292 TTTTTCCCTT
*
22895302 ACTTTATTTCTTTAACTTTA
1 ACTTTATTTCTTTAAATTTA
22895322 ACTTTATGTTCTTTAAATTTA
1 ACTTTAT-TTCTTTAAATTTA
22895343 A
1 A
22895344 AACTCAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.57
Consensus pattern (20 bp):
ACTTTATTTCTTTAAATTTA
Found at i:22896397 original size:22 final size:20
Alignment explanation
Indices: 22896349--22896400 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
22896339 GAAAAATTAA
*
22896349 TTTGAAAAATCTAAGTGATT
1 TTTGAAAATTCTAAGTGATT
*
22896369 TTTGAAAATTCTAAGTTTATT
1 TTTGAAAATTCTAAG-TGATT
22896390 TTTGGAAAATT
1 TTT-GAAAATT
22896401 AATTTTGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 14 0.50
21 7 0.25
22 7 0.25
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTGAAAATTCTAAGTGATT
Found at i:22910516 original size:29 final size:29
Alignment explanation
Indices: 22910475--22910592 Score: 102
Period size: 30 Copynumber: 4.0 Consensus size: 29
22910465 TTTTTGGACA
*
22910475 TTTGGGGTCAAAATGGTAATTTTTGAAAGT
1 TTTGGGGTAAAAATGG-AATTTTTGAAAGT
* *
22910505 TTTGGGGTAAAAAAT-GAAATTTT--AGGT
1 TTTGGGGT-AAAAATGGAATTTTTGAAAGT
* *
22910532 ATTCGAGGGT-AAAAT-GATAATTTTGAAAGT
1 -TTTG-GGGTAAAAATGGA-ATTTTTGAAAGT
22910562 TTTGGGGTTAAAAATGGAATTTTTGAAAGT
1 TTTGGGG-TAAAAATGGAATTTTTGAAAGT
22910592 T
1 T
22910593 CGGGGTCAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
27 10 0.14
28 12 0.17
29 14 0.19
30 29 0.40
31 7 0.10
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (29 bp):
TTTGGGGTAAAAATGGAATTTTTGAAAGT
Found at i:22910597 original size:29 final size:30
Alignment explanation
Indices: 22910423--22910603 Score: 94
Period size: 29 Copynumber: 6.1 Consensus size: 30
22910413 TCTCAGGGGT
* * *
22910423 AAAATGGTAATTTTTGAAAGCTTCGAGGTTG
1 AAAATGG-AATTTTTGAAAGTTTCGGGGTTA
* * * *
22910454 AAGATGGAGTTTTTTTGGACA-TTT-GGGG-TC
1 AAAATGGA--ATTTTT-GAAAGTTTCGGGGTTA
* *
22910484 AAAATGGTAATTTTTGAAAGTTTTGGGGTAA
1 AAAATGG-AATTTTTGAAAGTTTCGGGGTTA
* *
22910515 AAAAT-GAAATTTT--AGGTATTCGAGGG-T-
1 AAAATGGAATTTTTGAAAGT-TTCG-GGGTTA
* *
22910542 AAAAT-GATAATTTTGAAAGTTTTGGGGTTA
1 AAAATGGA-ATTTTTGAAAGTTTCGGGGTTA
*
22910572 AAAATGGAATTTTTGAAAG-TTCGGGGTCA
1 AAAATGGAATTTTTGAAAGTTTCGGGGTTA
22910601 AAA
1 AAA
22910604 TACAATTTTT
Statistics
Matches: 115, Mismatches: 20, Indels: 32
0.69 0.12 0.19
Matches are distributed among these distances:
27 10 0.09
28 15 0.13
29 32 0.28
30 31 0.27
31 17 0.15
32 7 0.06
33 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.36
Consensus pattern (30 bp):
AAAATGGAATTTTTGAAAGTTTCGGGGTTA
Found at i:22910604 original size:58 final size:57
Alignment explanation
Indices: 22910478--22910612 Score: 166
Period size: 57 Copynumber: 2.4 Consensus size: 57
22910468 TTGGACATTT
* **
22910478 GGGGTCAAAATGGTAATTTTTGAAAGTTTTGGGGTAAAAAATGAAATTTTAGGTATTC
1 GGGGTCAAAATGATAA-TTTTGAAAGTTTTGGGGTAAAAAATGAAATTTTAGAAATTC
* * *
22910536 GAGGGT-AAAATGATAATTTTGAAAGTTTTGGGGTTAAAAATGGAATTTTTGAAAGTTC
1 G-GGGTCAAAATGATAATTTTGAAAGTTTTGGGGTAAAAAATGAAATTTTAGAAA-TTC
*
22910594 GGGGTCAAAAT-ACAATTTT
1 GGGGTCAAAATGATAATTTT
22910613 TAGACAGTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
57 44 0.66
58 19 0.28
59 4 0.06
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (57 bp):
GGGGTCAAAATGATAATTTTGAAAGTTTTGGGGTAAAAAATGAAATTTTAGAAATTC
Found at i:22911496 original size:22 final size:21
Alignment explanation
Indices: 22911459--22911499 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
22911449 TAGAGGTTTC
22911459 AAAACTTTTTCTTTTTCTTTT
1 AAAACTTTTTCTTTTTCTTTT
22911480 AAAACTGTTTT-TGTTTTCTT
1 AAAACT-TTTTCT-TTTTCTT
22911500 CTTTATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.20, C:0.12, G:0.05, T:0.63
Consensus pattern (21 bp):
AAAACTTTTTCTTTTTCTTTT
Found at i:22911776 original size:12 final size:12
Alignment explanation
Indices: 22911755--22911808 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
22911745 ATGTTATACT
*
22911755 TATTAGTATTAA
1 TATTATTATTAA
22911767 TATTATTATTAA
1 TATTATTATTAA
*
22911779 TATTATTAATAA
1 TATTATTATTAA
* *
22911791 CACTTACTATTAA
1 TA-TTATTATTAA
22911804 TATTA
1 TATTA
22911809 ACAAGCATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 26 0.74
13 9 0.26
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.50
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:22911782 original size:9 final size:9
Alignment explanation
Indices: 22911716--22911789 Score: 55
Period size: 9 Copynumber: 8.4 Consensus size: 9
22911706 TATTATCAAA
*
22911716 AATATTATC
1 AATATTATT
22911725 AATATTATT
1 AATATTATT
*
22911734 AATGGTTATT
1 AAT-ATTATT
*
22911744 AATGTTA-T
1 AATATTATT
*
22911752 -A-CTTATT
1 AATATTATT
* *
22911759 AGTATTAAT
1 AATATTATT
*
22911768 ATTATTATT
1 AATATTATT
22911777 AATATTATT
1 AATATTATT
22911786 AATA
1 AATA
22911790 ACACTTACTA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
6 3 0.06
7 2 0.04
8 1 0.02
9 38 0.73
10 8 0.15
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (9 bp):
AATATTATT
Found at i:22911785 original size:21 final size:21
Alignment explanation
Indices: 22911727--22911789 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
22911717 ATATTATCAA
* *
22911727 TATTATTAATGGTTATTAATGT
1 TATTATTAAT-ATTATTAATAT
* *
22911749 TA-TACTTATTAGTATTAATAT
1 TATTA-TTAATATTATTAATAT
22911770 TATTATTAATATTATTAATA
1 TATTATTAATATTATTAATA
22911790 ACACTTACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
21 25 0.76
22 8 0.24
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (21 bp):
TATTATTAATATTATTAATAT
Found at i:22912581 original size:17 final size:17
Alignment explanation
Indices: 22912541--22912584 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
22912531 AAATATATCT
* *
22912541 TAAATTCAAATTTATAA
1 TAAATTTAAATTTAAAA
22912558 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
22912575 TAAATTTAAA
1 TAAATTTAAA
22912585 CTTTGTTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:22912951 original size:11 final size:11
Alignment explanation
Indices: 22912931--22912964 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
22912921 GGACCCAAGA
22912931 TGAATTAATTC
1 TGAATTAATTC
*
22912942 TGAATCAATTTC
1 TGAATTAA-TTC
22912954 TGAATTAATTC
1 TGAATTAATTC
22912965 ATTTGTGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (11 bp):
TGAATTAATTC
Found at i:22913899 original size:37 final size:35
Alignment explanation
Indices: 22913836--22913946 Score: 102
Period size: 37 Copynumber: 3.0 Consensus size: 35
22913826 ATTCCAAAAA
22913836 TAATATTATTTTAATATTTTAATATTAAATTTAAT-T
1 TAATATTATTTTAATATTTT-ATATT-AATTTAATAT
22913872 TAATACTTATTTTAATAGTATTT-TATTAATTTAATAT
1 TAATA-TTATTTTAATA-T-TTTATATTAATTTAATAT
* **
22913909 TAAAGTGATTATCTTAATATTAAAT-TTAATTTAATAT
1 T-AA-T-ATTATTTTAATATTTTATATTAATTTAATAT
22913946 T
1 T
22913947 TATCTTGTAG
Statistics
Matches: 64, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
36 13 0.20
37 31 0.48
38 5 0.08
39 14 0.22
40 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (35 bp):
TAATATTATTTTAATATTTTATATTAATTTAATAT
Found at i:22913909 original size:11 final size:11
Alignment explanation
Indices: 22913836--22913911 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 11
22913826 ATTCCAAAAA
*
22913836 TAATATTATTT
1 TAATATTAATT
22913847 TAATATTTTAATAT
1 TAATA--TTAAT-T
22913861 TAA-ATTTAATT
1 TAATA-TTAATT
*
22913872 TAATACTTATTT
1 TAATA-TTAATT
*
22913884 TAATAGT-ATT
1 TAATATTAATT
22913894 T--TATTAATT
1 TAATATTAATT
22913903 TAATATTAA
1 TAATATTAA
22913912 AGTGATTATC
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 3 0.06
11 16 0.31
12 17 0.33
13 5 0.10
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (11 bp):
TAATATTAATT
Found at i:22913919 original size:20 final size:18
Alignment explanation
Indices: 22913837--22913946 Score: 75
Period size: 20 Copynumber: 5.9 Consensus size: 18
22913827 TTCCAAAAAT
* *
22913837 AATATTATTTTAATATTTT
1 AATATTAATTTAATA-TTA
22913856 AATATTAAATTTAAT-TT-
1 AATATT-AATTTAATATTA
* *
22913873 AATACTTATTTTAATAGTA
1 AATA-TTAATTTAATATTA
**
22913892 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
22913911 AAGTGATT-ATCTTAATATTA
1 AA-T-ATTAAT-TTAATATTA
22913931 AAT-TTAATTTAATATT
1 AATATTAATTTAATATT
22913947 TATCTTGTAG
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
17 21 0.29
18 7 0.10
19 22 0.30
20 23 0.32
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:22916305 original size:12 final size:12
Alignment explanation
Indices: 22916258--22916306 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
22916248 TCACTTTCTG
*
22916258 TTTTTATATCATT
1 TTTTTATA-AATT
*
22916271 TTCTTATAAATT
1 TTTTTATAAATT
*
22916283 TGTTATATAAATT
1 T-TTTTATAAATT
22916296 TTTTTATAAAT
1 TTTTTATAAAT
22916307 GTGTCATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 13 0.43
13 17 0.57
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (12 bp):
TTTTTATAAATT
Found at i:22918220 original size:30 final size:30
Alignment explanation
Indices: 22918184--22918297 Score: 117
Period size: 30 Copynumber: 3.8 Consensus size: 30
22918174 TTGAGAAACC
22918184 CTTATTTGA-CACTTTCAAAAAGGTTTGGCT
1 CTTATTTGAGCACTTTC-AAAAGGTTTGGCT
* * * *
22918214 CTTATTTGAACACTTTCAAAAGCTTTAGCC
1 CTTATTTGAGCACTTTCAAAAGGTTTGGCT
* *
22918244 CTTATTTGAGCACTTTGAAAA-GTTTGACT
1 CTTATTTGAGCACTTTCAAAAGGTTTGGCT
**
22918273 -TTCATTTGAGCACTTTGTAAAGGTT
1 CTT-ATTTGAGCACTTTCAAAAGGTT
22918298 AAGCCCTAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.03
29 21 0.30
30 41 0.58
31 7 0.10
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (30 bp):
CTTATTTGAGCACTTTCAAAAGGTTTGGCT
Found at i:22918287 original size:59 final size:60
Alignment explanation
Indices: 22918182--22918322 Score: 153
Period size: 59 Copynumber: 2.4 Consensus size: 60
22918172 ACTTGAGAAA
* * *
22918182 CCCTTATTTGA-CACTTTCAAAAAGGTTTGGCTCTTATTTGAACACTTTCAAAAGCTTTAG
1 CCCTTATTTGAGCACTTT-GAAAAGGTTTGACTCTTATTTGAACACTTTCAAAAGCTTAAG
* ** *
22918242 CCCTTATTTGAGCACTTTGAAAA-GTTTGACT-TTCATTTGAGCACTTTGTAAAGGTTAAG
1 CCCTTATTTGAGCACTTTGAAAAGGTTTGACTCTT-ATTTGAACACTTTCAAAAGCTTAAG
* * *
22918301 CCCTAATATGAGCATTTTGAAA
1 CCCTTATTTGAGCACTTTGAAA
22918323 GATTAAACCC
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
58 2 0.03
59 46 0.67
60 15 0.22
61 6 0.09
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (60 bp):
CCCTTATTTGAGCACTTTGAAAAGGTTTGACTCTTATTTGAACACTTTCAAAAGCTTAAG
Found at i:22919561 original size:26 final size:26
Alignment explanation
Indices: 22919525--22919589 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
22919515 TTTCCTTGGT
22919525 TCTTGCGAGCTAGGT-TCACGAGCTCC
1 TCTTGCGAGCTAGGTCT-ACGAGCTCC
*
22919551 TCTTGCGAGCTAGGTCTGCGAGCTCC
1 TCTTGCGAGCTAGGTCTACGAGCTCC
*
22919577 ACTTGCGAGCTAG
1 TCTTGCGAGCTAG
22919590 TCCGCAAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 35 0.97
27 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.26
Consensus pattern (26 bp):
TCTTGCGAGCTAGGTCTACGAGCTCC
Found at i:22922080 original size:23 final size:23
Alignment explanation
Indices: 22922030--22922080 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
22922020 AATTTTGTAA
*
22922030 TTATAAGATTAAAACATGATACT
1 TTATAAGATTAAAACATAATACT
* *
22922053 ATATAA-ATTAAAAACATAATAGT
1 TTATAAGATT-AAAACATAATACT
22922076 TTATA
1 TTATA
22922081 TAGGACTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (23 bp):
TTATAAGATTAAAACATAATACT
Found at i:22923079 original size:39 final size:40
Alignment explanation
Indices: 22922991--22923079 Score: 92
Period size: 39 Copynumber: 2.2 Consensus size: 40
22922981 CAAAATAATA
* * * *
22922991 TTTTTAGAATATTTTCAGTTGAGGAAAATTCTTTGGCTGT
1 TTTTTAAAATATTTTCAATTGAGGAAAAATCTTTGGCTAT
* **
22923031 TGTAGAAAATATTTTCAATTGA-GAAAAATCTTAT-GCTAT
1 TTTTTAAAATATTTTCAATTGAGGAAAAATCTT-TGGCTAT
22923070 TTTTTAAAAT
1 TTTTTAAAAT
22923080 TGAAATTATA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
39 20 0.53
40 18 0.47
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.45
Consensus pattern (40 bp):
TTTTTAAAATATTTTCAATTGAGGAAAAATCTTTGGCTAT
Found at i:22925238 original size:87 final size:86
Alignment explanation
Indices: 22925129--22925292 Score: 233
Period size: 87 Copynumber: 1.9 Consensus size: 86
22925119 TACATGCATA
* * *
22925129 AGGTTGAGTTCTCACTCTTAATGAGTTCATAT-CTTA-AGATTTTGATGGTCCTATTGAGACGAA
1 AGGTTGAGTTATCACTCTTAATGAATTCATATAC-TAGAG-TTTGGATGGTCCTATTGAGACGAA
22925192 CTTGATGAATTCACTGACATGAG
64 CTTGATGAATTCACTGACATGAG
* * *
22925215 AGGTTGAGTTTATTACTCTTAATGAATTCATATACTAGAGTTTGGGTGGTCCTATTGAGACGGAC
1 AGGTTGAG-TTATCACTCTTAATGAATTCATATACTAGAGTTTGGATGGTCCTATTGAGACGAAC
22925280 TTGATGAATTCAC
65 TTGATGAATTCAC
22925293 GGAACTTAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
86 8 0.12
87 58 0.84
88 3 0.04
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (86 bp):
AGGTTGAGTTATCACTCTTAATGAATTCATATACTAGAGTTTGGATGGTCCTATTGAGACGAACT
TGATGAATTCACTGACATGAG
Found at i:22928255 original size:20 final size:20
Alignment explanation
Indices: 22928190--22928259 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
22928180 TTTTGTGCTG
*
22928190 TTTTTTTACTGTTTTGATTGC
1 TTTTTTTACTGTTTT-AGTGC
* * * **
22928211 TATTTTTCATTGTTTTTGTAT
1 T-TTTTTTACTGTTTTAGTGC
22928232 TTTTTTTACTGTTTTAGTGC
1 TTTTTTTACTGTTTTAGTGC
22928252 TTTTTTTA
1 TTTTTTTA
22928260 TTTTGGTTGT
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
20 22 0.59
21 3 0.08
22 12 0.32
ACGTcount: A:0.11, C:0.07, G:0.11, T:0.70
Consensus pattern (20 bp):
TTTTTTTACTGTTTTAGTGC
Found at i:22932860 original size:13 final size:13
Alignment explanation
Indices: 22932842--22932875 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
22932832 AAATTAATAC
22932842 ATTTATTTTTAAT
1 ATTTATTTTTAAT
22932855 ATTTA-TTTTAAT
1 ATTTATTTTTAAT
22932867 ATTTTATTT
1 A-TTTATTT
22932876 CTTCTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.42
13 9 0.47
14 2 0.11
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTATTTTTAAT
Found at i:22933637 original size:20 final size:21
Alignment explanation
Indices: 22933600--22933651 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
22933590 TATTTTTTAA
22933600 TAAAATTTTAATAATATTATT
1 TAAAATTTTAATAATATTATT
* *
22933621 TAAAATTTAAAATTATTATTATT
1 TAAAATTT-TAA-TAATATTATT
22933644 GTAAAATT
1 -TAAAATT
22933652 AAGAGATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 8 0.31
22 2 0.08
23 9 0.35
24 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TAAAATTTTAATAATATTATT
Found at i:22934552 original size:63 final size:59
Alignment explanation
Indices: 22934464--22934633 Score: 179
Period size: 63 Copynumber: 2.8 Consensus size: 59
22934454 AGTAGTTATA
*
22934464 TAGGAATCAAATTACTAAAGTATAATATCTCATAATAATATTCTATAATATCCCATTACCCAT
1 TAGGAATCAAATTGCTAAAG-ATAATATCTCATAATAATATTCTATAATAT-CCA-T-CCCAT
* * *
22934527 TAGGAATCAAATTGCTAAGAGATAATATCTTATAATAATA-TCT-T-ATA-CTATCTCAT
1 TAGGAATCAAATTGCTAA-AGATAATATCTCATAATAATATTCTATAATATCCATCCCAT
* * *
22934583 TACGAATCACATTGCTAAAAGATAATATC-CATAATAATATCCTAATAATAT
1 TAGGAATCAAATTGCT-AAAGATAATATCTCATAATAATATTCT-ATAATAT
22934634 ATAATATCAC
Statistics
Matches: 92, Mismatches: 8, Indels: 17
0.79 0.07 0.15
Matches are distributed among these distances:
55 9 0.10
56 30 0.33
57 3 0.03
58 3 0.03
59 3 0.03
60 3 0.03
61 1 0.01
62 3 0.03
63 35 0.38
64 2 0.02
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (59 bp):
TAGGAATCAAATTGCTAAAGATAATATCTCATAATAATATTCTATAATATCCATCCCAT
Found at i:22934566 original size:13 final size:13
Alignment explanation
Indices: 22934548--22934573 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22934538 TTGCTAAGAG
22934548 ATAATATCTTATA
1 ATAATATCTTATA
22934561 ATAATATCTTATA
1 ATAATATCTTATA
22934574 CTATCTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAATATCTTATA
Found at i:22934630 original size:11 final size:12
Alignment explanation
Indices: 22934604--22934633 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
22934594 TTGCTAAAAG
22934604 ATAATATCCATA
1 ATAATATCCATA
22934616 ATAATATCC-TA
1 ATAATATCCATA
22934627 ATAATAT
1 ATAATAT
22934634 ATAATATCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATATCCATA
Found at i:22935536 original size:17 final size:16
Alignment explanation
Indices: 22935514--22935561 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
22935504 GTTGAAATTC
* *
22935514 ATTTGTATTTGTTTGAT
1 ATTTGTATTTATTT-AG
*
22935531 ATTTGTAATTATTTAG
1 ATTTGTATTTATTTAG
22935547 ATTTGTATTGTATTT
1 ATTTGTATT-TATTT
22935562 GTTACACTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (16 bp):
ATTTGTATTTATTTAG
Found at i:22936836 original size:16 final size:17
Alignment explanation
Indices: 22936815--22936849 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22936805 TAAGAAATAT
22936815 AATAAA-ATATTTAAAA
1 AATAAATATATTTAAAA
*
22936831 AATAAATATTTTTAAAA
1 AATAAATATATTTAAAA
22936848 AA
1 AA
22936850 GATATATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAAATATATTTAAAA
Found at i:22937030 original size:2 final size:2
Alignment explanation
Indices: 22937023--22937048 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22937013 AATTTTGTGG
22937023 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22937049 GTTTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22938970 original size:20 final size:20
Alignment explanation
Indices: 22938945--22938983 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
22938935 GAAAATAATG
22938945 TCTTATACATAATTTTTATT
1 TCTTATACATAATTTTTATT
22938965 TCTTATACATAATTTTTAT
1 TCTTATACATAATTTTTAT
22938984 AAGATATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (20 bp):
TCTTATACATAATTTTTATT
Found at i:22938991 original size:20 final size:20
Alignment explanation
Indices: 22938948--22938993 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
22938938 AATAATGTCT
** *
22938948 TATACATAATTTTTATTTCT
1 TATACATAATTTTTATAACA
*
22938968 TATACATAATTTTTATAAGA
1 TATACATAATTTTTATAACA
22938988 TATACA
1 TATACA
22938994 ACATCAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (20 bp):
TATACATAATTTTTATAACA
Found at i:22947271 original size:23 final size:23
Alignment explanation
Indices: 22947245--22947289 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22947235 AAATTTGAAT
**
22947245 TTCGAATTATTCGAATCGAGTTA
1 TTCGAATTAAACGAATCGAGTTA
*
22947268 TTCGACTTAAACGAATCGAGTT
1 TTCGAATTAAACGAATCGAGTT
22947290 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (23 bp):
TTCGAATTAAACGAATCGAGTTA
Found at i:22947557 original size:58 final size:58
Alignment explanation
Indices: 22947491--22947668 Score: 295
Period size: 58 Copynumber: 3.1 Consensus size: 58
22947481 ATCCATCAAC
*
22947491 AAACTAAACCCAAATATTTTTAAACCCACATATAATTTCATTCTTCAAAAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAACACTCAT
22947549 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAACACTCAT
* * * *
22947607 AAATTAAACCCAAATATTTTTTAACCCAAATATAATTTTATTCCT-AAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAA-AACACTCAT
22947665 AAAC
1 AAAC
22947669 AACTTCTTTC
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
57 3 0.03
58 110 0.97
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAACACTCAT
Found at i:22947645 original size:17 final size:16
Alignment explanation
Indices: 22947613--22947646 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22947603 TCATAAATTA
*
22947613 AACCCAAATATTTTTT
1 AACCCAAATATATTTT
22947629 AACCCAAATATAATTTT
1 AACCCAAATAT-ATTTT
22947646 A
1 A
22947647 TTCCTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (16 bp):
AACCCAAATATATTTT
Found at i:22951439 original size:16 final size:16
Alignment explanation
Indices: 22951411--22951452 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
22951401 GGTTTGTATA
*
22951411 TATTTATTAATTT-TAT
1 TATTTATTTATTTGT-T
*
22951427 TATTTCTTTATTTGTT
1 TATTTATTTATTTGTT
22951443 TATTTATTTA
1 TATTTATTTA
22951453 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (16 bp):
TATTTATTTATTTGTT
Found at i:22952009 original size:45 final size:47
Alignment explanation
Indices: 22951906--22952015 Score: 125
Period size: 50 Copynumber: 2.3 Consensus size: 47
22951896 ACTACTATGA
* * * * * *
22951906 GTTTTAATCTGCCCCTCTATTACTTTAGGGGTATAAGATTTGCATTT
1 GTTTCAATTTGCCTCTCTATAACTTTAGGGGTAAAAGATTAGCATTT
22951953 GTAGCTTCAATTTGCCTCTCTATAACTTTAGGGGTAAAAGATTAG-A-TT
1 GT---TTCAATTTGCCTCTCTATAACTTTAGGGGTAAAAGATTAGCATTT
22952001 GTTTCAATTTGCCTC
1 GTTTCAATTTGCCTC
22952016 ATGGTCGAGG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
45 13 0.24
47 2 0.04
48 4 0.07
49 1 0.02
50 34 0.63
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (47 bp):
GTTTCAATTTGCCTCTCTATAACTTTAGGGGTAAAAGATTAGCATTT
Found at i:22952052 original size:39 final size:40
Alignment explanation
Indices: 22951985--22952610 Score: 174
Period size: 39 Copynumber: 15.8 Consensus size: 40
22951975 TAACTTTAGG
*
22951985 GGTAAAAGAT-TAGATTGT-TTCAATTTGCCTCATGGTCGA
1 GGTAAAAGATCT-GATGGTCTTCAATTTGCCTCATGGTCGA
* * *
22952024 GGTAAGAGATCTGATGGTCTTCAA-TTGCC-CTTTGGT-TA
1 GGTAAAAGATCTGATGGTCTTCAATTTGCCTC-ATGGTCGA
* ** *
22952062 GGGTAAAAGAT-TAGAT-TTCTTCAATTTGCCTCATAATCGG
1 -GGTAAAAGATCT-GATGGTCTTCAATTTGCCTCATGGTCGA
* *
22952102 GGTAAAAGATCAGATGGTCTTCAATCTTGCCCTC-TGGT-TA
1 GGTAAAAGATCTGATGGTCTTCAAT-TTG-CCTCATGGTCGA
* * * * * *
22952142 GGGTAAAAGAT-TAGAT-TTCTTCAATCTACCCCATGATCGG
1 -GGTAAAAGATCT-GATGGTCTTCAATTTGCCTCATGGTCGA
* *
22952182 GGTAAAAGATCGGATGGTCCTT-AATCTTGCCTTC-TGGT-TA
1 GGTAAAAGATCTGATGGT-CTTCAAT-TTGCC-TCATGGTCGA
* * * * * *
22952222 GGGTAAAAGAT-TAGAT-TTCTTTAATCTGCCCCCATGATCGG
1 -GGTAAAAGATCT-GATGGTCTTCAATTTG-CCTCATGGTCGA
* * * * **
22952263 GGTAAAAGATCGGATGGTCTTCAATCCTGCC-CTTTAGTTAA
1 GGTAAAAGATCTGATGGTCTTCAAT-TTGCCTC-ATGGTCGA
* * * * *
22952304 GGTAAAAGAT-TGGAT-ATTTTCAATCTGCCCCATGATCG-
1 GGTAAAAGATCT-GATGGTCTTCAATTTGCCTCATGGTCGA
* *
22952342 GGATAAAAG-TC-GATTGGTCTTCAATCTTGCCCTC-TAGT-TA
1 GG-TAAAAGATCTGA-TGGTCTTCAAT-TTG-CCTCATGGTCGA
* * * * * *
22952382 GGGTAAAAGAT-TGGAT-TTTTTCAATCTGCCCCATGATCGG
1 -GGTAAAAGATCT-GATGGTCTTCAATTTGCCTCATGGTCGA
*
22952422 GGTAAAAG-TC-GACTGGTCTTCAATCTTGCCCTC-TGGT-TA
1 GGTAAAAGATCTGA-TGGTCTTCAAT-TTG-CCTCATGGTCGA
* * * * * *
22952461 GGGTAAAAGATTTGAT-TTCTTCAATCTGCCCCATGATCGG
1 -GGTAAAAGATCTGATGGTCTTCAATTTGCCTCATGGTCGA
* * *
22952501 GGTAAAAGATCGGATGGTATTCAATCTTGCCCTC-TGGT-TA
1 GGTAAAAGATCTGATGGTCTTCAAT-TTG-CCTCATGGTCGA
* * * * *
22952541 GGGTAAAAGAT-TGGAT-GTTTTCAATCTGCCCCATGATCGG
1 -GGTAAAAGATCT-GATGGTCTTCAATTTGCCTCATGGTCGA
22952581 GGTAAAAG-TC-GATTGGTCTTCAATCTTGCC
1 GGTAAAAGATCTGA-TGGTCTTCAAT-TTGCC
22952611 CTCTGGTTAG
Statistics
Matches: 416, Mismatches: 104, Indels: 133
0.64 0.16 0.20
Matches are distributed among these distances:
37 6 0.01
38 30 0.07
39 156 0.38
40 115 0.28
41 94 0.23
42 15 0.04
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (40 bp):
GGTAAAAGATCTGATGGTCTTCAATTTGCCTCATGGTCGA
Found at i:22952166 original size:80 final size:79
Alignment explanation
Indices: 22951984--22952654 Score: 928
Period size: 79 Copynumber: 8.4 Consensus size: 79
22951974 ATAACTTTAG
* * * * *
22951984 GGGTAAAAGATTAGATTGT-TTCAATTTGCCTCATGGTCGAGGTAAGAGATCTGATGGTCTTCAA
1 GGGTAAAAGATTAGATT-TCTTCAATCTGCCCCATGATCGGGGTAAAAGATC-GATGGTCTTCAA
*
22952048 --TTGCCCTTTGGTTA
64 TCTTGCCCTCTGGTTA
* * *
22952062 GGGTAAAAGATTAGATTTCTTCAATTTGCCTCATAATCGGGGTAAAAGATCAGATGGTCTTCAAT
1 GGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATC-GATGGTCTTCAAT
22952127 CTTGCCCTCTGGTTA
65 CTTGCCCTCTGGTTA
*
22952142 GGGTAAAAGATTAGATTTCTTCAATCTACCCCATGATCGGGGTAAAAGATCGGATGGTCCTT-AA
1 GGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATC-GATGGT-CTTCAA
*
22952206 TCTTGCCTTCTGGTTA
64 TCTTGCCCTCTGGTTA
*
22952222 GGGTAAAAGATTAGATTTCTTTAATCTGCCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAA
1 GGGTAAAAGATTAGATTTCTTCAATCTG-CCCCATGATCGGGGTAAAAGATC-GATGGTCTTCAA
* * *
22952287 TCCTGCCCTTTAGTTA
64 TCTTGCCCTCTGGTTA
* * *
22952303 AGGTAAAAGATTGGATATT-TTCAATCTGCCCCATGATCGGGATAAAAG-TCGATTGGTCTTCAA
1 GGGTAAAAGATTAGAT-TTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGA-TGGTCTTCAA
*
22952366 TCTTGCCCTCTAGTTA
64 TCTTGCCCTCTGGTTA
* *
22952382 GGGTAAAAGATTGGATTTTTTCAATCTGCCCCATGATCGGGGTAAAAG-TCGACTGGTCTTCAAT
1 GGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGA-TGGTCTTCAAT
22952446 CTTGCCCTCTGGTTA
65 CTTGCCCTCTGGTTA
* *
22952461 GGGTAAAAGATTTGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTATTCAAT
1 GGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATC-GATGGTCTTCAAT
22952526 CTTGCCCTCTGGTTA
65 CTTGCCCTCTGGTTA
*
22952541 GGGTAAAAGATTGGATGTT-TTCAATCTGCCCCATGATCGGGGTAAAAG-TCGATTGGTCTTCAA
1 GGGTAAAAGATTAGAT-TTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGA-TGGTCTTCAA
22952604 TCTTGCCCTCTGGTTA
64 TCTTGCCCTCTGGTTA
* *
22952620 GGGTAAAAGATTGGATTTTTTCAATCTGCCCCATG
1 GGGTAAAAGATTAGATTTCTTCAATCTGCCCCATG
22952655 TTCATAAATT
Statistics
Matches: 546, Mismatches: 33, Indels: 27
0.90 0.05 0.04
Matches are distributed among these distances:
77 1 0.00
78 65 0.12
79 203 0.37
80 202 0.37
81 73 0.13
82 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (79 bp):
GGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGATGGTCTTCAATC
TTGCCCTCTGGTTA
Found at i:22952380 original size:79 final size:79
Alignment explanation
Indices: 22951984--22952654 Score: 919
Period size: 80 Copynumber: 8.4 Consensus size: 79
22951974 ATAACTTTAG
* * * * * *
22951984 GGGTAAAAGATTAGATTGTTTCAATTTGCCTCATGGTCGAGGTAAGAGATCTGATGGTCTTCAA-
1 GGGTAAAAGATTAGATT-TTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
22952048 -TTGCCCTTTGGTTA
65 CTTGCCCTCTGGTTA
* * * *
22952062 GGGTAAAAGATTAGATTTCTTCAATTTGCCTCATAATCGGGGTAAAAGATCAGATGGTCTTCAAT
1 GGGTAAAAGATTAGATTT-TTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
22952127 CTTGCCCTCTGGTTA
65 CTTGCCCTCTGGTTA
*
22952142 GGGTAAAAGATTAGATTTCTTCAATCTACCCCATGATCGGGGTAAAAGATCGGATGGTCCTT-AA
1 GGGTAAAAGATTAGATTT-TTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGT-CTTCAA
*
22952206 TCTTGCCTTCTGGTTA
64 TCTTGCCCTCTGGTTA
*
22952222 GGGTAAAAGATTAGATTTCTTTAATCTGCCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAA
1 GGGTAAAAGATTAGATTT-TTCAATCTG-CCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAA
* * *
22952287 TCCTGCCCTTTAGTTA
64 TCTTGCCCTCTGGTTA
* * *
22952303 AGGTAAAAGATTGGATATTTTCAATCTGCCCCATGATCGGGATAAAAG-TC-GATTGGTCTTCAA
1 GGGTAAAAGATTAGAT-TTTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGA-TGGTCTTCAA
*
22952366 TCTTGCCCTCTAGTTA
64 TCTTGCCCTCTGGTTA
*
22952382 GGGTAAAAGATTGGATTTTTTCAATCTGCCCCATGATCGGGGTAAAAG-TC-GACTGGTCTTCAA
1 GGGTAAAAGATTAGA-TTTTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGA-TGGTCTTCAA
22952445 TCTTGCCCTCTGGTTA
64 TCTTGCCCTCTGGTTA
* *
22952461 GGGTAAAAGATTTGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTATTCAAT
1 GGGTAAAAGATTAGATTT-TTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
22952526 CTTGCCCTCTGGTTA
65 CTTGCCCTCTGGTTA
*
22952541 GGGTAAAAGATTGGATGTTTTCAATCTGCCCCATGATCGGGGTAAAAG-TC-GATTGGTCTTCAA
1 GGGTAAAAGATTAGAT-TTTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGA-TGGTCTTCAA
22952604 TCTTGCCCTCTGGTTA
64 TCTTGCCCTCTGGTTA
*
22952620 GGGTAAAAGATTGGATTTTTTCAATCTGCCCCATG
1 GGGTAAAAGATTAGA-TTTTTCAATCTGCCCCATG
22952655 TTCATAAATT
Statistics
Matches: 546, Mismatches: 32, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
77 1 0.00
78 64 0.12
79 202 0.37
80 204 0.37
81 73 0.13
82 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (79 bp):
GGGTAAAAGATTAGATTTTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
TTGCCCTCTGGTTA
Found at i:22952562 original size:159 final size:159
Alignment explanation
Indices: 22951984--22952654 Score: 930
Period size: 159 Copynumber: 4.2 Consensus size: 159
22951974 ATAACTTTAG
* * * * * *
22951984 GGGTAAAAGATTAGATTGTTTCAATTTGCCTCATGGTCGAGGTAAGAGATCTGATGGTCTTCAA-
1 GGGTAAAAGATTAGATT-TTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
* * * *
22952048 -TTGCCCTTTGGTTAGGGTAAAAGATTAGATTTCTTCAATTTGCCTCATAATCGGGGTAAAAGAT
65 CTTGCCCTCTGGTTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGAT
22952112 CAGATGGTCTTCAATCTTGCCCTCTGGTTA
130 CAGATGGTCTTCAATCTTGCCCTCTGGTTA
*
22952142 GGGTAAAAGATTAGATTTCTTCAATCTACCCCATGATCGGGGTAAAAGATCGGATGGTCCTT-AA
1 GGGTAAAAGATTAGATTT-TTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGT-CTTCAA
* *
22952206 TCTTGCCTTCTGGTTAGGGTAAAAGATTAGATTTCTTTAATCTGCCCCCATGATCGGGGTAAAAG
64 TCTTGCCCTCTGGTTAGGGTAAAAGATTAGATTTCTTCAATCTG-CCCCATGATCGGGGTAAAAG
* * * *
22952271 ATCGGATGGTCTTCAATCCTGCCCTTTAGTTA
128 ATCAGATGGTCTTCAATCTTGCCCTCTGGTTA
* * *
22952303 AGGTAAAAGATTGGATATTTTCAATCTGCCCCATGATCGGGATAAAAG-TC-GATTGGTCTTCAA
1 GGGTAAAAGATTAGAT-TTTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGA-TGGTCTTCAA
* * *
22952366 TCTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTTTTCAATCTGCCCCATGATCGGGGTAAAAG-
64 TCTTGCCCTCTGGTTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGA
22952430 TC-GACTGGTCTTCAATCTTGCCCTCTGGTTA
129 TCAGA-TGGTCTTCAATCTTGCCCTCTGGTTA
* *
22952461 GGGTAAAAGATTTGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTATTCAAT
1 GGGTAAAAGATTAGATTT-TTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
22952526 CTTGCCCTCTGGTTAGGGTAAAAGATTGGATGTT-TTCAATCTGCCCCATGATCGGGGTAAAAG-
65 CTTGCCCTCTGGTTAGGGTAAAAGATTAGAT-TTCTTCAATCTGCCCCATGATCGGGGTAAAAGA
22952589 TC-GATTGGTCTTCAATCTTGCCCTCTGGTTA
129 TCAGA-TGGTCTTCAATCTTGCCCTCTGGTTA
*
22952620 GGGTAAAAGATTGGATTTTTTCAATCTGCCCCATG
1 GGGTAAAAGATTAGA-TTTTTCAATCTGCCCCATG
22952655 TTCATAAATT
Statistics
Matches: 463, Mismatches: 36, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
157 5 0.01
158 118 0.25
159 159 0.34
160 92 0.20
161 87 0.19
162 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (159 bp):
GGGTAAAAGATTAGATTTTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
TTGCCCTCTGGTTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATC
AGATGGTCTTCAATCTTGCCCTCTGGTTA
Found at i:22968229 original size:80 final size:80
Alignment explanation
Indices: 22968132--22969021 Score: 1291
Period size: 80 Copynumber: 11.2 Consensus size: 80
22968122 AGTTACAACC
* *
22968132 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGATCATCCAATCTTTTACCCCGATCATGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGG
22968197 GGCAGATTGAAGAAA
66 GGCAGATTGAAGAAA
*
22968212 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTAAAGACCATCCGATCTTTTACCCCGATCATGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGG
22968277 GGCAGATTGAAGAAA
66 GGCAGATTGAAGAAA
* *
22968292 TCAAATCTTTTACCCTAACCAAAGGGCAAGATTGAAGACCAAT-CGA-CTTTTACCCCGATCATG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACC-ATCCGATCTTTTACCCCGATCATG
*
22968355 GGGCAGATTGAAAAAA
65 GGGCAGATTGAAGAAA
*
22968371 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGCCCAAT-CGA-CTTTTACCCCGATCATG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACC-ATCCGATCTTTTACCCCGATCATG
* *
22968434 AGGCAGATTGAAAAAA
65 GGGCAGATTGAAGAAA
22968450 TCCAATCTTTTACCCTAACCAGAGGGCAA-AGTTGAAGACCATCCGATCTTTTACCCCGATCATG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGA-TTGAAGACCATCCGATCTTTTACCCCGATCATG
22968514 GGGCAGATTGAAGAAA
65 GGGCAGATTGAAGAAA
*
22968530 TCAAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCAAT-CGA-CTTTTACCCCGATCATG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACC-ATCCGATCTTTTACCCCGATCATG
* *
22968593 GGGCAAATTGAAAAAA
65 GGGCAGATTGAAGAAA
*
22968609 TCCAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCAAT-CGA-CTTTTACCCCGATCATG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACC-ATCCGATCTTTTACCCCGATCATG
*
22968672 GGGCAGATTGAAAAAA
65 GGGCAGATTGAAGAAA
* * *
22968688 TCCAATCTTTTACCCTAACTAGAGGGCAGGATTGAAGCCCATCCGATCTTTTACCCCGATCATGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCAT-G
*
22968753 GGGCAGATTAAAGAAA
65 GGGCAGATTGAAGAAA
* *
22968769 TCTAATCTTTTACCCTAACCAGAGGGCAAGATTAAAGACCATCCGATCTTTTACCCCGATCATGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGG
*
22968834 GGTAGATTGAAGAAA
66 GGCAGATTGAAGAAA
* * * * *
22968849 TCTAATCTTTTACCCTAACCAGAGGGCAAGAATGAAGACCATCTGATCTTTTACCCCGATTATGA
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGG
*
22968914 GGCAAATTGAAGAAA
66 GGCAGATTGAAGAAA
** * * * * * * *
22968929 TATAATCTTTTACCCTAACCAAAAGGC-A-ATTGAAGACCATCAGATCTCTTACCTCGACCATGA
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGG
*
22968992 GGCAAATTGAA-ACAA
66 GGCAGATTGAAGA-AA
*
22969007 TCTAATCTTTTACCC
1 TCCAATCTTTTACCC
22969022 CTAAAGTTAT
Statistics
Matches: 752, Mismatches: 48, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
77 1 0.00
78 61 0.08
79 296 0.39
80 316 0.42
81 78 0.10
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (80 bp):
TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGG
GGCAGATTGAAGAAA
Found at i:22968558 original size:238 final size:238
Alignment explanation
Indices: 22968132--22969021 Score: 1344
Period size: 238 Copynumber: 3.7 Consensus size: 238
22968122 AGTTACAACC
* * *
22968132 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGATCATCCAATCTTTTACCCCGATCATGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCAT-CGATCTTTTACCCCGATCATGA
* *
22968197 GGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTAAAGACCATCCGATCTT
65 GGCAGATTGAAAAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTT
*
22968262 TTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAAAGGGCAAGATTGA
130 TTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGATTGA
22968327 AGACCAATCGACTTTTACCCCGATCATGGGGCAGATTGAAAAAA
195 AGACCAATCGACTTTTACCCCGATCATGGGGCAGATTGAAAAAA
*
22968371 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGCCCAATCGA-CTTTTACCCCGATCATGA
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACC-ATCGATCTTTTACCCCGATCATGA
22968435 GGCAGATTGAAAAAATCCAATCTTTTACCCTAACCAGAGGGCAA-AGTTGAAGACCATCCGATCT
65 GGCAGATTGAAAAAATCCAATCTTTTACCCTAACCAGAGGGCAAGA-TTGAAGACCATCCGATCT
22968499 TTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGATTG
129 TTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGATTG
*
22968564 AAGACCAATCGACTTTTACCCCGATCATGGGGCAAATTGAAAAAA
194 AAGACCAATCGACTTTTACCCCGATCATGGGGCAGATTGAAAAAA
* *
22968609 TCCAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCAATCGA-CTTTTACCCCGATCATGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACC-ATCGATCTTTTACCCCGATCATGA
* * *
22968673 GGCAGATTGAAAAAATCCAATCTTTTACCCTAACTAGAGGGCAGGATTGAAGCCCATCCGATCTT
65 GGCAGATTGAAAAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTT
* * *
22968738 TTACCCCGATCATGGGGGCAGATTAAAGAAATCTAATCTTTTACCCTAACCAGAGGGCAAGATTA
130 TTACCCCGATCAT-GGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGATTG
* *
22968803 AAGACC-ATCCGATCTTTTACCCCGATCATGGGGTAGATTGAAGAAA
194 AAGACCAAT-CGA-CTTTTACCCCGATCATGGGGCAGATTGAAAAAA
* * *
22968849 TCTAATCTTTTACCCTAACCAGAGGGCAAGAATGAAGACCATCTGATCTTTTACCCCGATTATGA
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATC-GATCTTTTACCCCGATCATGA
* * ** * * * *
22968914 GGCAAATTGAAGAAATATAATCTTTTACCCTAACCAAAAGGC-A-ATTGAAGACCATCAGATCTC
65 GGCAGATTGAAAAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTT
* * * * *
22968977 TTACCTCGACCATGAGGCAAATTGAA-ACAATCTAATCTTTTACCC
130 TTACCCCGATCATGGGGCAGATTGAAGA-AATCAAATCTTTTACCC
22969022 CTAAAGTTAT
Statistics
Matches: 601, Mismatches: 41, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
237 2 0.00
238 348 0.58
239 129 0.21
240 71 0.12
241 51 0.08
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (238 bp):
TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCGATCTTTTACCCCGATCATGAG
GCAGATTGAAAAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTT
TACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGATTGAA
GACCAATCGACTTTTACCCCGATCATGGGGCAGATTGAAAAAA
Found at i:22968956 original size:39 final size:39
Alignment explanation
Indices: 22968135--22969021 Score: 232
Period size: 39 Copynumber: 22.3 Consensus size: 39
22968125 TACAACCTCC
* * * *
22968135 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGATCATCC
1 AATCTTTTACCCTAACCAAAAGGCAA-ATTGAAGA-AATCT
** * *** * *
22968176 AATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCC
1 AATCTTTTACCCTAACCAAAAGGCAAATTGAAGAAATCT
* * * * *
22968215 AATCTTTTACCCTAACCAGAGGGCAAGATTAAAGACCATCC
1 AATCTTTTACCCTAACCAAAAGGCAA-ATTGAAGA-AATCT
* ** * *** * *
22968256 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCA
1 AATCTTTTACCCTAACCAAAAGGCAAATTGAAGAAATCT
*
22968295 AATCTTTTACCCTAACCAAAGGGCAAGATTGAAGACCAATC-
1 AATCTTTTACCCTAACCAAAAGGCAA-ATTGAAGA--AATCT
* ** * *** * * *
22968336 GA-CTTTTACCCCGATCATGGGGCAGATTGAAAAAATCC
1 AATCTTTTACCCTAACCAAAAGGCAAATTGAAGAAATCT
* * *
22968374 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGCCCAATC-
1 AATCTTTTACCCTAACCAAAAGGCAA-ATTGAAG--AAATCT
* ** * ** * * *
22968415 GA-CTTTTACCCCGATCATGAGGCAGATTGAAAAAATCC
1 AATCTTTTACCCTAACCAAAAGGCAAATTGAAGAAATCT
* * * *
22968453 AATCTTTTACCCTAACCAGAGGGCAAAGTTGAAGACCATCC
1 AATCTTTTACCCTAACCAAAAGGCAAA-TTGAAGA-AATCT
* ** * *** * *
22968494 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCA
1 AATCTTTTACCCTAACCAAAAGGCAAATTGAAGAAATCT
* *
22968533 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCAATC-
1 AATCTTTTACCCTAACCAAAAGGCAA-ATTGAAGA--AATCT
* ** * *** * *
22968574 GA-CTTTTACCCCGATCATGGGGCAAATTGAAAAAATCC
1 AATCTTTTACCCTAACCAAAAGGCAAATTGAAGAAATCT
* * *
22968612 AATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCAATC-
1 AATCTTTTACCCTAACCAAAAGGCAA-ATTGAAGA--AATCT
* ** * *** * * *
22968653 GA-CTTTTACCCCGATCATGGGGCAGATTGAAAAAATCC
1 AATCTTTTACCCTAACCAAAAGGCAAATTGAAGAAATCT
* * * * ** *
22968691 AATCTTTTACCCTAACTAGAGGGCAGGATTGAAGCCCATCC
1 AATCTTTTACCCTAACCAAAAGGCA-AATTGAAG-AAATCT
* ** * *** * *
22968732 GATCTTTTACCCCGATCATGGGGGCAGATTAAAGAAATCT
1 AATCTTTTACCCTAACCA-AAAGGCAAATTGAAGAAATCT
* * * * *
22968772 AATCTTTTACCCTAACCAGAGGGCAAGATTAAAGACCATCC
1 AATCTTTTACCCTAACCAAAAGGCAA-ATTGAAGA-AATCT
* ** * *** * *
22968813 GATCTTTTACCCCGATCATGGGGTAGATTGAAGAAATCT
1 AATCTTTTACCCTAACCAAAAGGCAAATTGAAGAAATCT
* * * *
22968852 AATCTTTTACCCTAACCAGAGGGCAAGAATGAAGACCATCT
1 AATCTTTTACCCTAACCAAAAGGCAA-ATTGAAGA-AATCT
* ** ** ** *
22968893 GATCTTTTACCCCGATTATGAGGCAAATTGAAGAAATAT
1 AATCTTTTACCCTAACCAAAAGGCAAATTGAAGAAATCT
*
22968932 AATCTTTTACCCTAACCAAAAGGC-AATTGAAGACCATC-
1 AATCTTTTACCCTAACCAAAAGGCAAATTGAAGA-AATCT
* * **
22968970 AGATCTCTTA-CCTCGACCATGAGGCAAATTGAA-ACAATCT
1 A-ATCTTTTACCCT-AACCAAAAGGCAAATTGAAGA-AATCT
22969010 AATCTTTTACCC
1 AATCTTTTACCC
22969022 CTAAAGTTAT
Statistics
Matches: 625, Mismatches: 184, Indels: 75
0.71 0.21 0.08
Matches are distributed among these distances:
37 16 0.03
38 17 0.03
39 238 0.38
40 194 0.31
41 138 0.22
42 22 0.04
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (39 bp):
AATCTTTTACCCTAACCAAAAGGCAAATTGAAGAAATCT
Found at i:22971940 original size:23 final size:23
Alignment explanation
Indices: 22971900--22971957 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
22971890 TTTAACTCTC
22971900 TTAAAAGCCCAAACCCATTAAAAT
1 TTAAAA-CCCAAACCCATTAAAAT
*
22971924 TTAAAACCCAATA-CCATTAATAT
1 TTAAAACCCAA-ACCCATTAAAAT
22971947 TT-AAACCCAAA
1 TTAAAACCCAAA
22971958 TTAATAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 1 0.03
22 8 0.25
23 16 0.50
24 7 0.22
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (23 bp):
TTAAAACCCAAACCCATTAAAAT
Found at i:22972324 original size:21 final size:20
Alignment explanation
Indices: 22972284--22972330 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
22972274 TTGGAGTTCA
*
22972284 TTAAAT-TTTTTATTTAATT
1 TTAAATATTTTTAATTAATT
*
22972303 TTAAATATTTTATAATTCATT
1 TTAAATATTTT-TAATTAATT
*
22972324 TGAAATA
1 TTAAATA
22972331 AAATTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 4 0.17
21 13 0.57
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTAAATATTTTTAATTAATT
Found at i:22973445 original size:20 final size:20
Alignment explanation
Indices: 22973420--22973461 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22973410 ATGATCTACT
22973420 ATAATTTTTATGA-TTTTTAA
1 ATAATTTTT-TGATTTTTTAA
*
22973440 ATAATTTTTTTATTTTTTAA
1 ATAATTTTTTGATTTTTTAA
22973460 AT
1 AT
22973462 TTCTATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
ATAATTTTTTGATTTTTTAA
Found at i:22975716 original size:52 final size:52
Alignment explanation
Indices: 22975614--22975908 Score: 353
Period size: 52 Copynumber: 5.7 Consensus size: 52
22975604 ATTCATTTTC
* * * * * * **
22975614 ATTTA-ATACTCATGATGACACATAGTTATCGAATCTCTTAACCCACAAAGG
1 ATTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
* *
22975665 ATTCATATACTCATGATGACACATAGTCATAC-GACCTCATAATCCGTAAAGG
1 ATTTATATACTCACGATGACACATAGTCAT-CGGACCTCATAATCCGTAAAGG
* * * * *
22975717 ATTTATATACTCACGATGACACATAGTCCTCAGACCTTATAATTCGTAAACG
1 ATTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
* * **
22975769 ATTTATATACTCACGATAACATATAGTCATCGGACCTCATAATATGTAAAGG
1 ATTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
*
22975821 ATTTATATACTCACG-TCAACACATAGTCATCGGACCTCATAATCCGTAAAGG
1 ATTTATATACTCACGAT-GACACATAGTCATCGGACCTCATAATCCGTAAAGG
* *
22975873 ATTTATATACTTACAATGACACATAGTCATCGGACC
1 ATTTATATACTCACGATGACACATAGTCATCGGACC
22975909 CTTTTCGTTT
Statistics
Matches: 211, Mismatches: 28, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
51 6 0.03
52 203 0.96
53 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (52 bp):
ATTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
Found at i:22980342 original size:5 final size:5
Alignment explanation
Indices: 22980332--22980450 Score: 55
Period size: 5 Copynumber: 24.0 Consensus size: 5
22980322 TAGGACATGT
* * * * *
22980332 TATGA TATGA T-TCGA TATGA TATGA CATGA CATGA TAAGA TATGC TATGT
1 TATGA TATGA TAT-GA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
* * * * ** * *
22980382 TACT-A TTTGA TGTGA TATGA TAAGC TATGA TCCGA AATGA TATGA TCTG-
1 TA-TGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
** *
22980431 TAAAA TATGA TAAGA TATGA
1 TATGA TATGA TATGA TATGA
22980451 CTTGCATTGA
Statistics
Matches: 81, Mismatches: 28, Indels: 10
0.68 0.24 0.08
Matches are distributed among these distances:
4 3 0.04
5 76 0.94
6 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (5 bp):
TATGA
Found at i:22981888 original size:2 final size:2
Alignment explanation
Indices: 22981881--22981908 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22981871 TAGTAGGATC
22981881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22981909 CCAAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22988568 original size:98 final size:95
Alignment explanation
Indices: 22988395--22988580 Score: 255
Period size: 98 Copynumber: 1.9 Consensus size: 95
22988385 GATTTTATTA
22988395 TTGTAACATTTATTATTCATGTATTCCATTCCACCACCCCATCCCTCAAGAAAAGAAGAAGAGAA
1 TTGTAACATTTATTATTCATGTATTCCATTCCACCACCCCATCCCTCAAGAAAAGAAGAAGAGAA
* * * *
22988460 CTCTTCTTCTAAAGGGATCAGGGGTCGTGT
66 CACTTATTCTAAAGAGAGCAGGGGTCGTGT
* * * * * *
22988490 TTGTAACATTTATTATTCATGCTATACTCCATTCCCCCACTCCTTTCCTTAAGGAAAGAAGAAGA
1 TTGTAACATTTATTATTCATG-TAT--TCCATTCCACCACCCCATCCCTCAAGAAAAGAAGAAGA
22988555 GAACACTTATTCTAAAGAGAGCAGGG
63 GAACACTTATTCTAAAGAGAGCAGGG
22988581 ATCGGGTTCT
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
95 21 0.27
96 3 0.04
98 54 0.69
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (95 bp):
TTGTAACATTTATTATTCATGTATTCCATTCCACCACCCCATCCCTCAAGAAAAGAAGAAGAGAA
CACTTATTCTAAAGAGAGCAGGGGTCGTGT
Found at i:22992197 original size:2 final size:2
Alignment explanation
Indices: 22992190--22992250 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
22992180 TTTTAAGCAA
22992190 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22992232 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
22992251 AATTGTCGAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22993292 original size:23 final size:23
Alignment explanation
Indices: 22993240--22993292 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
22993230 TTAATAATTT
22993240 AAATTTTATAAAAAATTCAATAA
1 AAATTTTATAAAAAATTCAATAA
*
22993263 AGTATTTT-TAAAAGAATT-AATACA
1 A-AATTTTATAAAA-AATTCAATA-A
22993287 AAATTT
1 AAATTT
22993293 CAAAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (23 bp):
AAATTTTATAAAAAATTCAATAA
Found at i:22995954 original size:31 final size:31
Alignment explanation
Indices: 22995919--22995978 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
22995909 CTTCAATGAG
22995919 ACATG-AATATTTAAATATAA-TCCTCAAAACA
1 ACATGCAA-ATTTAAATA-AAGTCCTCAAAACA
*
22995950 ACATGCAAATTTGAATAAAGTCCTCAAAA
1 ACATGCAAATTTAAATAAAGTCCTCAAAA
22995979 AGTAGTTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 2 0.08
31 22 0.85
32 2 0.08
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.27
Consensus pattern (31 bp):
ACATGCAAATTTAAATAAAGTCCTCAAAACA
Found at i:23008469 original size:42 final size:42
Alignment explanation
Indices: 23008354--23008594 Score: 203
Period size: 43 Copynumber: 5.6 Consensus size: 42
23008344 TTTTGCGAAA
* * * **
23008354 AAACGCCGCTATAAAACATGATTTTTAACGACATTTTTTCTCAC
1 AAACACCGCTAAAAAACATGATCTTTAACGAC-GCTTTTC-CAC
* * * * *
23008398 AAACGCCGTTAAAAAACATGATATATAACGACGCTTTTCCAT
1 AAACACCGCTAAAAAACATGATCTTTAACGACGCTTTTCCAC
* * * * *
23008440 AAACACCGATAAAAAATATGATCTTTAACGGCGTTTTTTCAAC
1 AAACACCGCTAAAAAACATGATCTTTAACGACG-CTTTTCCAC
* * * * * *
23008483 AAACACTGCTAAAGAACATAATCTTTAGCAACACTTTTACCAC
1 AAACACCGCTAAAAAACATGATCTTTAACGACGCTTTT-CCAC
* * * *
23008526 AAGCACCGCTAAAAAACATAATCTTTAACTACGCTTTCCCAC
1 AAACACCGCTAAAAAACATGATCTTTAACGACGCTTTTCCAC
* *
23008568 AAACCCCGCTATAAAACATGATCTTTA
1 AAACACCGCTAAAAAACATGATCTTTA
23008595 GCAACATTTT
Statistics
Matches: 157, Mismatches: 38, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
42 60 0.38
43 69 0.44
44 28 0.18
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (42 bp):
AAACACCGCTAAAAAACATGATCTTTAACGACGCTTTTCCAC
Found at i:23008507 original size:43 final size:43
Alignment explanation
Indices: 23008354--23008605 Score: 130
Period size: 42 Copynumber: 5.9 Consensus size: 43
23008344 TTTTGCGAAA
* * * * * * * *
23008354 AAACGCCGCTATAAAACATGATTTTTAACGACATTTTTTCTCAC
1 AAACACCGCTAAAAAACATAATCTTTAACAACACTTTTAC-AAC
* * * * * * * * *
23008398 AAACGCCGTTAAAAAACATGATATATAACGACGCTTTT-CCAT
1 AAACACCGCTAAAAAACATAATCTTTAACAACACTTTTACAAC
* * * ** ** *
23008440 AAACACCGATAAAAAATATGATCTTTAACGGCGTTTTTTCAAC
1 AAACACCGCTAAAAAACATAATCTTTAACAACACTTTTACAAC
* * * *
23008483 AAACACTGCTAAAGAACATAATCTTTAGCAACACTTTTACCAC
1 AAACACCGCTAAAAAACATAATCTTTAACAACACTTTTACAAC
* * * * *
23008526 AAGCACCGCTAAAAAACATAATCTTTAACTACGC-TTTCCCAC
1 AAACACCGCTAAAAAACATAATCTTTAACAACACTTTTACAAC
* * * * *
23008568 AAACCCCGCTATAAAACATGATCTTTAGCAACATTTTT
1 AAACACCGCTAAAAAACATAATCTTTAACAACACTTTT
23008606 CCTATAAACG
Statistics
Matches: 163, Mismatches: 43, Indels: 5
0.77 0.20 0.02
Matches are distributed among these distances:
42 66 0.40
43 65 0.40
44 32 0.20
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (43 bp):
AAACACCGCTAAAAAACATAATCTTTAACAACACTTTTACAAC
Found at i:23008520 original size:85 final size:84
Alignment explanation
Indices: 23008431--23008614 Score: 199
Period size: 85 Copynumber: 2.2 Consensus size: 84
23008421 TATAACGACG
* * * * * *
23008431 CTTTTCCATAAACACCGATAAAAAATATGATCTTTAACGGCGTTTTTTCAACAAACACTGCTA-A
1 CTTTTCCATAAACACCGATAAAAAACATAATCTTTAACGACG-CTTTCCAACAAACACCGCTATA
23008495 AGAACATAATCTTTAGCAACA
65 A-AACATAATCTTTAGCAACA
* * * * * *
23008516 CTTTTACCACAAGCACCGCTAAAAAACATAATCTTTAACTACGCTTTCCCACAAACCCCGCTATA
1 CTTTT-CCATAAACACCGATAAAAAACATAATCTTTAACGACGCTTTCCAACAAACACCGCTATA
*
23008581 AAACATGATCTTTAGCAACA
65 AAACATAATCTTTAGCAACA
*
23008601 TTTTTCCTATAAAC
1 CTTTTCC-ATAAAC
23008615 GCCGCTAATA
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
84 2 0.03
85 46 0.57
86 32 0.40
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.29
Consensus pattern (84 bp):
CTTTTCCATAAACACCGATAAAAAACATAATCTTTAACGACGCTTTCCAACAAACACCGCTATAA
AACATAATCTTTAGCAACA
Found at i:23008621 original size:43 final size:42
Alignment explanation
Indices: 23008354--23008622 Score: 196
Period size: 43 Copynumber: 6.3 Consensus size: 42
23008344 TTTTGCGAAA
* * *
23008354 AAACGCCGCTATAAAACATGATTTTTAACGACATTTTTTCTCAC
1 AAACACCGCTAAAAAACATGATCTTTAACGACA-TTTTTC-CAC
* * * * ** *
23008398 AAACGCCGTTAAAAAACATGATATATAACGACGCTTTTCCAT
1 AAACACCGCTAAAAAACATGATCTTTAACGACATTTTTCCAC
* * * * *
23008440 AAACACCGATAAAAAATATGATCTTTAACGGCGTTTTTTCAAC
1 AAACACCGCTAAAAAACATGATCTTTAACGAC-ATTTTTCCAC
* * * * * *
23008483 AAACACTGCTAAAGAACATAATCTTTAGCAACACTTTTACCAC
1 AAACACCGCTAAAAAACATGATCTTTAACGACA-TTTTTCCAC
* * * ** *
23008526 AAGCACCGCTAAAAAACATAATCTTTAACTACGCTTTCCCAC
1 AAACACCGCTAAAAAACATGATCTTTAACGACATTTTTCCAC
* * * * *
23008568 AAACCCCGCTATAAAACATGATCTTTAGCAACATTTTTCCTAT
1 AAACACCGCTAAAAAACATGATCTTTAACGACATTTTTCC-AC
*
23008611 AAACGCCGCTAA
1 AAACACCGCTAA
23008623 TATTAACAAA
Statistics
Matches: 174, Mismatches: 48, Indels: 7
0.76 0.21 0.03
Matches are distributed among these distances:
42 66 0.38
43 80 0.46
44 28 0.16
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (42 bp):
AAACACCGCTAAAAAACATGATCTTTAACGACATTTTTCCAC
Found at i:23012646 original size:81 final size:83
Alignment explanation
Indices: 23012501--23012706 Score: 256
Period size: 81 Copynumber: 2.5 Consensus size: 83
23012491 TTTTTAATGG
* * * * *
23012501 CGTTTTTCTCATAAATGCCGTTAATGCTCTGACCTTTAGCGGCGTTTTCTCATAAATGTAGCTAA
1 CGTTTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAACGGCGCTTTCTCATAAATGCAGCTAA
*
23012566 TGCTCTGATC-TTTAGCGA
66 TGCTCTGA-CATTTAACGA
* * *
23012584 CG-TTTTCTTATAAACGCCGCTAATGCT-TTACCTTTAACGGCGCTTTCTCATAAATGCCGCTAA
1 CGTTTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAACGGCGCTTTCTCATAAATGCAGCTAA
* *
23012647 TGCTTTGACATTTAACGG
66 TGCTCTGACATTTAACGA
* * *
23012665 CGTTTTTCTCACAAGCGCTGCTAATGCTCTGACCTTTAACGG
1 CGTTTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAACGG
23012707 TGTTTTCCCC
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
80 1 0.01
81 46 0.44
82 43 0.41
83 14 0.13
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (83 bp):
CGTTTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAACGGCGCTTTCTCATAAATGCAGCTAA
TGCTCTGACATTTAACGA
Found at i:23012688 original size:42 final size:41
Alignment explanation
Indices: 23012493--23012736 Score: 247
Period size: 41 Copynumber: 5.9 Consensus size: 41
23012483 CTGCTTAATT
* *
23012493 TTTAATGGCGTTTTTCTCATAAATGCCGTTAATGCTCTGACC
1 TTTAACGGCG-TTTTCTCATAAATGCCGCTAATGCTCTGACC
* ** *
23012535 TTTAGCGGCGTTTTCTCATAAATGTAGCTAATGCTCTGATC
1 TTTAACGGCGTTTTCTCATAAATGCCGCTAATGCTCTGACC
* * * * *
23012576 TTTAGCGACGTTTTCTTATAAACGCCGCTAATGCT-TTACC
1 TTTAACGGCGTTTTCTCATAAATGCCGCTAATGCTCTGACC
* * *
23012616 TTTAACGGCGCTTTCTCATAAATGCCGCTAATGCTTTGACA
1 TTTAACGGCGTTTTCTCATAAATGCCGCTAATGCTCTGACC
* ** *
23012657 TTTAACGGCGTTTTTCTCACAAGCGCTGCTAATGCTCTGACC
1 TTTAACGGCG-TTTTCTCATAAATGCCGCTAATGCTCTGACC
* * * * *
23012699 TTTAACGGTGTTTTCCCCACAAACGCCACTAATGCTCT
1 TTTAACGGCGTTTT-CTCATAAATGCCGCTAATGCTCT
23012737 TTCCCATATT
Statistics
Matches: 167, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
40 33 0.20
41 74 0.44
42 60 0.36
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (41 bp):
TTTAACGGCGTTTTCTCATAAATGCCGCTAATGCTCTGACC
Found at i:23014041 original size:2 final size:2
Alignment explanation
Indices: 23014034--23014105 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
23014024 TATTACATTA
23014034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23014076 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23014106 TAGTATAAGA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23015006 original size:41 final size:41
Alignment explanation
Indices: 23014955--23015190 Score: 269
Period size: 41 Copynumber: 5.8 Consensus size: 41
23014945 GTTTATGGGA
* * **
23014955 AAACGCCGCTATTGCT-TAACCTTTAGCGGCATTTTTCCCAT
1 AAACGCCGCTATTACTCTGACCTTTAGCGGCGCTTTT-CCAT
* * * * * *
23014996 AAATGCCGCTAATGCTCTAACATTTAGCGGCG-TTTTGTCAT
1 AAACGCCGCTATTACTCTGACCTTTAGCGGCGCTTTT-CCAT
*
23015037 AAACACCGCTATTACTCTGACCTTTAGCGGCGCTTTTCCAT
1 AAACGCCGCTATTACTCTGACCTTTAGCGGCGCTTTTCCAT
*
23015078 AAGCGCCGCTATTACTCTGACCTTTAGCGGCGCTTTTCCAT
1 AAACGCCGCTATTACTCTGACCTTTAGCGGCGCTTTTCCAT
*
23015119 AAGCGCCGCTATTACTCTGACCTTTAGCGGCGCTTTTCCAT
1 AAACGCCGCTATTACTCTGACCTTTAGCGGCGCTTTTCCAT
* * * * * *
23015160 AAGCGGCGCTAATGCTCCGGCCTTTAGCGGC
1 AAACGCCGCTATTACTCTGACCTTTAGCGGC
23015191 ATTTATGAGG
Statistics
Matches: 173, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 156 0.90
42 17 0.10
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.31
Consensus pattern (41 bp):
AAACGCCGCTATTACTCTGACCTTTAGCGGCGCTTTTCCAT
Found at i:23015111 original size:24 final size:24
Alignment explanation
Indices: 23015079--23015152 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 24
23015069 CTTTTCCATA
23015079 AGCGCCGCTATTACTCTGACCTTT
1 AGCGCCGCTATTACTCTGACCTTT
* * *
23015103 AGCGGCGC--TT--T-T--CCATA
1 AGCGCCGCTATTACTCTGACCTTT
23015120 AGCGCCGCTATTACTCTGACCTTT
1 AGCGCCGCTATTACTCTGACCTTT
*
23015144 AGCGGCGCT
1 AGCGCCGCT
23015153 TTTCCATAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
17 10 0.28
19 3 0.08
20 1 0.03
21 1 0.03
22 3 0.08
24 18 0.50
ACGTcount: A:0.16, C:0.32, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCGCCGCTATTACTCTGACCTTT
Found at i:23015184 original size:82 final size:82
Alignment explanation
Indices: 23014955--23015190 Score: 296
Period size: 82 Copynumber: 2.9 Consensus size: 82
23014945 GTTTATGGGA
* * ** ** * *
23014955 AAACGCCGCTATTGCT-TAACCTTTAGCGGCATTTTTCCCATAAATGCCGCTAATGCTCTAACAT
1 AAACGCCGCTATTACTCTGACCTTTAGCGGCGCTTTT-CCATAAGCGCCGCTAATGCTCTGACCT
*
23015019 TTAGCGGCGTTTTGTCAT
65 TTAGCGGCGTTTTGCCAT
* * *
23015037 AAACACCGCTATTACTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTACTCTGACCTT
1 AAACGCCGCTATTACTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGCTAATGCTCTGACCTT
23015102 TAGCGGCGCTTTT-CCAT
66 TAGCGGCG-TTTTGCCAT
* * * *
23015119 AAGCGCCGCTATTACTCTGACCTTTAGCGGCGCTTTTCCATAAGCGGCGCTAATGCTCCGGCCTT
1 AAACGCCGCTATTACTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGCTAATGCTCTGACCTT
23015184 TAGCGGC
66 TAGCGGC
23015191 ATTTATGAGG
Statistics
Matches: 133, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
82 112 0.84
83 21 0.16
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.31
Consensus pattern (82 bp):
AAACGCCGCTATTACTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGCTAATGCTCTGACCTT
TAGCGGCGTTTTGCCAT
Found at i:23017236 original size:24 final size:24
Alignment explanation
Indices: 23017208--23017273 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
23017198 CACTTCTGCG
*
23017208 CAATAGAGAATTGTTCACCTGTGC
1 CAATAGAGAATTGTTCACCTGTAC
* *
23017232 CAATAAAGAATTGTTCATCTGTAC
1 CAATAGAGAATTGTTCACCTGTAC
23017256 CAATAGAGAATTGTTCAC
1 CAATAGAGAATTGTTCAC
23017274 TGAGTTTGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (24 bp):
CAATAGAGAATTGTTCACCTGTAC
Found at i:23019934 original size:94 final size:94
Alignment explanation
Indices: 23019619--23019933 Score: 440
Period size: 94 Copynumber: 3.4 Consensus size: 94
23019609 CATATTCTCG
* *
23019619 TTAGCTTAGTGTGAGCAACATCGT-TA--GGAAACAATTATATGTACAGATACCATATCGATGGA
1 TTAGCTTAGTGTGAGCAACATCGTATACTGGTAACAATTATATGTACAGATACCGTATCGATGGA
*
23019681 TGAGGTACCGCATATGTTGCGAGTCCTCG
66 TGAGGTACCGCATATGTTGCGAGTCCTCA
** * *
23019710 TCT-GCTTAAAGTGAGCAACATTGTATACTGGTAACAATTATACGTACAGATACCGTATCGATGG
1 T-TAGCTTAGTGTGAGCAACATCGTATACTGGTAACAATTATATGTACAGATACCGTATCGATGG
* *
23019774 CTGAGGTACCGCATATGTTACGAGTCCTCA
65 ATGAGGTACCGCATATGTTGCGAGTCCTCA
* * * * *
23019804 TTAGCTTAGTGTGAGCAACATCGTATACTGGTAACAGTTTTATGTACAGATATCGTATCAATGGT
1 TTAGCTTAGTGTGAGCAACATCGTATACTGGTAACAATTATATGTACAGATACCGTATCGATGGA
*
23019869 TGAGATACCGCATATGTTGCGAGTCCTCA
66 TGAGGTACCGCATATGTTGCGAGTCCTCA
* *
23019898 TTAGTTTAGTGTGAGCAGCATCGTATACTGGTAACA
1 TTAGCTTAGTGTGAGCAACATCGTATACTGGTAACA
23019934 GAGACAATTT
Statistics
Matches: 197, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
91 19 0.10
92 3 0.02
93 1 0.01
94 174 0.88
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (94 bp):
TTAGCTTAGTGTGAGCAACATCGTATACTGGTAACAATTATATGTACAGATACCGTATCGATGGA
TGAGGTACCGCATATGTTGCGAGTCCTCA
Found at i:23020721 original size:21 final size:21
Alignment explanation
Indices: 23020695--23020743 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
23020685 CTGGAGTTTG
*
23020695 TTGTATCGGTAAAAGTAATAA
1 TTGTATCGATAAAAGTAATAA
* * *
23020716 TTGTATCGATAGAAGTCATAC
1 TTGTATCGATAAAAGTAATAA
23020737 TTGTATC
1 TTGTATC
23020744 AATAGAACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (21 bp):
TTGTATCGATAAAAGTAATAA
Found at i:23020748 original size:21 final size:21
Alignment explanation
Indices: 23020707--23020750 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
23020697 GTATCGGTAA
*
23020707 AAGTAATAATTGTATCGATAG
1 AAGTAATAATTGTATCAATAG
* *
23020728 AAGTCATACTTGTATCAATAG
1 AAGTAATAATTGTATCAATAG
23020749 AA
1 AA
23020751 CCTTCCCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (21 bp):
AAGTAATAATTGTATCAATAG
Found at i:23029004 original size:94 final size:94
Alignment explanation
Indices: 23028689--23029003 Score: 440
Period size: 94 Copynumber: 3.4 Consensus size: 94
23028679 CATATTCTCG
* *
23028689 TTAGCTTAGTGTGAGCAACATCGT-TA--GGAAACAATTATATGTACAGATACCATATCGATGGA
1 TTAGCTTAGTGTGAGCAACATCGTATACTGGTAACAATTATATGTACAGATACCGTATCGATGGA
*
23028751 TGAGGTACCGCATATGTTGCGAGTCCTCG
66 TGAGGTACCGCATATGTTGCGAGTCCTCA
** * *
23028780 TCT-GCTTAAAGTGAGCAACATTGTATACTGGTAACAATTATACGTACAGATACCGTATCGATGG
1 T-TAGCTTAGTGTGAGCAACATCGTATACTGGTAACAATTATATGTACAGATACCGTATCGATGG
* *
23028844 CTGAGGTACCGCATATGTTACGAGTCCTCA
65 ATGAGGTACCGCATATGTTGCGAGTCCTCA
* * * * *
23028874 TTAGCTTAGTGTGAGCAACATCGTATACTGGTAACAGTTTTATGTACAGATATCGTATCAATGGT
1 TTAGCTTAGTGTGAGCAACATCGTATACTGGTAACAATTATATGTACAGATACCGTATCGATGGA
*
23028939 TGAGATACCGCATATGTTGCGAGTCCTCA
66 TGAGGTACCGCATATGTTGCGAGTCCTCA
* *
23028968 TTAGTTTAGTGTGAGCAGCATCGTATACTGGTAACA
1 TTAGCTTAGTGTGAGCAACATCGTATACTGGTAACA
23029004 GAGACAATTT
Statistics
Matches: 197, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
91 19 0.10
92 3 0.02
93 1 0.01
94 174 0.88
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (94 bp):
TTAGCTTAGTGTGAGCAACATCGTATACTGGTAACAATTATATGTACAGATACCGTATCGATGGA
TGAGGTACCGCATATGTTGCGAGTCCTCA
Found at i:23029791 original size:21 final size:21
Alignment explanation
Indices: 23029765--23029813 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
23029755 CTGGAGTTTG
*
23029765 TTGTATCGGTAAAAGTAATAA
1 TTGTATCGATAAAAGTAATAA
* * *
23029786 TTGTATCGATAGAAGTCATAC
1 TTGTATCGATAAAAGTAATAA
23029807 TTGTATC
1 TTGTATC
23029814 AATAGAACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (21 bp):
TTGTATCGATAAAAGTAATAA
Found at i:23029818 original size:21 final size:21
Alignment explanation
Indices: 23029777--23029820 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
23029767 GTATCGGTAA
*
23029777 AAGTAATAATTGTATCGATAG
1 AAGTAATAATTGTATCAATAG
* *
23029798 AAGTCATACTTGTATCAATAG
1 AAGTAATAATTGTATCAATAG
23029819 AA
1 AA
23029821 CCTTCCCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (21 bp):
AAGTAATAATTGTATCAATAG
Found at i:23037914 original size:94 final size:92
Alignment explanation
Indices: 23037751--23038057 Score: 367
Period size: 94 Copynumber: 3.4 Consensus size: 92
23037741 TTCTCGTTAA
* * *
23037751 CTTAGTATGAGCAGCATCGT-TA--GGGAACAATTATATGTACAGATATCGTATCGATGGCTGAG
1 CTTAGTGTGAGCAGCATCGTATACTGGTAACAGTTATATGTACA-ATA-CGTATCGATGGCTGAG
* *
23037813 GTACCGCATATGTTGCAATTCCTCGTCAG
64 GTACCGCATATGTTGCGAGTCCTCGTCAG
* * *
23037842 CTTAGAGTGAGCAGCATCATATA-TCGGTAACAGTTATATGTACATATACCGTATCGATGGCCGA
1 CTTAGTGTGAGCAGCATCGTATACT-GGTAACAGTTATATGTACA-ATA-CGTATCGATGGCTGA
* * * * *
23037906 TGTGCCGCATATGTTGTGAGTGCTCGTTAG
63 GGTACCGCATATGTTGCGAGTCCTCGTCAG
* *
23037936 CTTAGTGTGAGCAGCATCGTATACTGGTAACTGTTATATGTAC-AGA--TATCGATGGCTGAGGT
1 CTTAGTGTGAGCAGCATCGTATACTGGTAACAGTTATATGTACAATACGTATCGATGGCTGAGGT
*
23037998 ACCGCATATGTTGCGAGTCCTCATCAG
66 ACCGCATATGTTGCGAGTCCTCGTCAG
*
23038025 CTTAGTGTAAGCAGCATCGTATACTGGTAACAG
1 CTTAGTGTGAGCAGCATCGTATACTGGTAACAG
23038058 AGACAATTTT
Statistics
Matches: 184, Mismatches: 28, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
89 67 0.36
91 17 0.09
92 4 0.02
94 95 0.52
95 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (92 bp):
CTTAGTGTGAGCAGCATCGTATACTGGTAACAGTTATATGTACAATACGTATCGATGGCTGAGGT
ACCGCATATGTTGCGAGTCCTCGTCAG
Found at i:23038842 original size:21 final size:21
Alignment explanation
Indices: 23038818--23038873 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
23038808 CTAAAGTTTT
23038818 TTGTATCGATAGAAGTAATAA
1 TTGTATCGATAGAAGTAATAA
* *
23038839 TTGTATC-AGTAGAAGTCATAC
1 TTGTATCGA-TAGAAGTAATAA
*
23038860 TTGTATCGGTAGAA
1 TTGTATCGATAGAA
23038874 ACTTCTCAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (21 bp):
TTGTATCGATAGAAGTAATAA
Found at i:23040548 original size:25 final size:25
Alignment explanation
Indices: 23040485--23040557 Score: 85
Period size: 24 Copynumber: 2.9 Consensus size: 25
23040475 AAACTTTGTT
* *
23040485 TGGGCTCGTAAGAGTTAACT-TATC
1 TGGGCTCGTAAGAGCTAATTCTATC
* *
23040509 TAGGCTCGTAAGAGCTAATTCTGTC
1 TGGGCTCGTAAGAGCTAATTCTATC
*
23040534 TGGGCTCGTATGAGCTAAATTCTA
1 TGGGCTCGTAAGAGCT-AATTCTA
23040558 GAAGACCGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 17 0.43
25 17 0.43
26 6 0.15
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (25 bp):
TGGGCTCGTAAGAGCTAATTCTATC
Found at i:23053053 original size:21 final size:21
Alignment explanation
Indices: 23053011--23053066 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
23053001 TTGGATTTTG
**
23053011 TTATATCGGTAGAAGTGTTAC
1 TTATATCGGTAGAAGTCATAC
* *
23053032 TTATTTCGGTAGTAGTCATAC
1 TTATATCGGTAGAAGTCATAC
* *
23053053 TTGTATCAGTAGAA
1 TTATATCGGTAGAA
23053067 CTATCACAAC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (21 bp):
TTATATCGGTAGAAGTCATAC
Found at i:23058934 original size:17 final size:16
Alignment explanation
Indices: 23058913--23058962 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
23058903 TATAATATAT
23058913 TTTAAATTTAAGTTTA
1 TTTAAATTTAAGTTTA
* *
23058929 TATTAAGTTTAAATTTA
1 T-TTAAATTTAAGTTTA
23058946 TTATAAATTTAAGTTTA
1 TT-TAAATTTAAGTTTA
23058963 AATTTATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 2 0.07
17 26 0.93
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (16 bp):
TTTAAATTTAAGTTTA
Found at i:23058940 original size:23 final size:24
Alignment explanation
Indices: 23058913--23058976 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
23058903 TATAATATAT
*
23058913 TTTAAATTTAAGTT-TATA-TTAAG
1 TTTAAATTTAA-TTATAAATTTAAG
23058936 TTTAAATTT-ATTATAAATTTAAG
1 TTTAAATTTAATTATAAATTTAAG
23058959 TTTAAATTT-ATT-TAAATT
1 TTTAAATTTAATTATAAATT
23058977 AAAATGTCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
21 2 0.05
22 10 0.26
23 26 0.68
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (24 bp):
TTTAAATTTAATTATAAATTTAAG
Found at i:23058952 original size:11 final size:10
Alignment explanation
Indices: 23058913--23058976 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 10
23058903 TATAATATAT
23058913 TTTAAATTTAA
1 TTTAAATTT-A
* *
23058924 GTTTATATTAA
1 -TTTAAATTTA
23058935 GTTTAAATTTA
1 -TTTAAATTTA
23058946 TTATAAATTTAA
1 TT-TAAATTT-A
23058958 GTTTAAATTTA
1 -TTTAAATTTA
23058969 TTTAAATT
1 TTTAAATT
23058977 AAAATGTCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
10 10 0.22
11 18 0.40
12 15 0.33
13 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (10 bp):
TTTAAATTTA
Found at i:23058954 original size:34 final size:33
Alignment explanation
Indices: 23058910--23058976 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
23058900 AATTATAATA
* *
23058910 TATTTTAAATTTAAGTTTATATTAAGTTTAAATT
1 TATTATAAATTTAAGTTTAAATTAA-TTTAAATT
*
23058944 TATTATAAATTTAAGTTTAAATTTATTTAAATT
1 TATTATAAATTTAAGTTTAAATTAATTTAAATT
23058977 AAAATGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 8 0.27
34 22 0.73
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (33 bp):
TATTATAAATTTAAGTTTAAATTAATTTAAATT
Found at i:23059683 original size:3 final size:3
Alignment explanation
Indices: 23059655--23059711 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
23059645 ATAATTTTAT
* * *
23059655 TAA TAG TAA TAA -ATA TAA TAA TTAA TAA TAA TAT TAA TAA TAA TAT
1 TAA TAA TAA TAA TA-A TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
23059701 TAA -AA TAA TAA
1 TAA TAA TAA TAA
23059712 AAAGGATTCG
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 3 0.07
3 37 0.84
4 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:23060803 original size:30 final size:29
Alignment explanation
Indices: 23060765--23060969 Score: 150
Period size: 30 Copynumber: 7.0 Consensus size: 29
23060755 CCCAAAAGGT
* * *
23060765 CCCT-GAACTATCCAAAAATCATATTTTAG
1 CCCTCGAACT-TCCAAAAATTACATTTTAA
23060794 CCCTCGAACTTCTCAAAAATTACATTTTAA
1 CCCTCGAACTTC-CAAAAATTACATTTTAA
** *
23060824 CCCTCGAACTTTTTAAAAATTACATTTTGA
1 CCCTCGAAC-TTCCAAAAATTACATTTTAA
* *
23060854 CCCTCAAACTTCCAAAAATTATATTTTAA
1 CCCTCGAACTTCCAAAAATTACATTTTAA
* * *
23060883 CCCTCAAACTTTTC---AATTCATATTTTAA
1 CCCTCGAAC-TTCCAAAAATT-ACATTTTAA
* * **
23060911 CCCCCAAACTTCACAAAAATTACATTTTTG
1 CCCTCGAACTTC-CAAAAATTACATTTTAA
* *
23060941 CCC-CTAAACTTCAAAAAATTACCATTTTA
1 CCCTC-GAACTTCCAAAAATTA-CATTTTA
23060970 CTTTGGATGT
Statistics
Matches: 146, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
27 6 0.04
28 18 0.12
29 40 0.27
30 76 0.52
31 6 0.04
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (29 bp):
CCCTCGAACTTCCAAAAATTACATTTTAA
Found at i:23060893 original size:59 final size:58
Alignment explanation
Indices: 23060787--23060938 Score: 182
Period size: 59 Copynumber: 2.6 Consensus size: 58
23060777 CAAAAATCAT
* * * *
23060787 ATTTTAGCCCTCGAACTTCTCAAAAATTACATTTTAACCCTCGAACTTTTTAAAAATT-AC
1 ATTTTAACCCTCAAACTTCACAAAAATTACATTTTAACCCTCAAAC-TTTT--AAATTCAC
* * * *
23060847 ATTTTGACCCTCAAACTTC-CAAAAATTATATTTTAACCCTCAAACTTTTCAATTCAT
1 ATTTTAACCCTCAAACTTCACAAAAATTACATTTTAACCCTCAAACTTTTAAATTCAC
*
23060904 ATTTTAACCCCCAAACTTCACAAAAATTACATTTT
1 ATTTTAACCCTCAAACTTCACAAAAATTACATTTT
23060939 TGCCCCTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
56 4 0.05
57 18 0.22
58 18 0.22
59 24 0.30
60 16 0.20
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (58 bp):
ATTTTAACCCTCAAACTTCACAAAAATTACATTTTAACCCTCAAACTTTTAAATTCAC
Found at i:23060936 original size:87 final size:87
Alignment explanation
Indices: 23060765--23060961 Score: 218
Period size: 87 Copynumber: 2.2 Consensus size: 87
23060755 CCCAAAAGGT
* * * * * *
23060765 CCCTGAACTATCCAAAAATCATATTTTAGCCCTCGAACTTCTCAAAAATTACATTTTAACCCTCG
1 CCCTAAACT-TCCAAAAATTATATTTTAACCCTCAAACTTCTC--AAATTACATTTTAACCCCCA
***
23060830 AACTTTTTAAAAATTACA-TTTTGA
63 AACTTCACAAAAATTACATTTTTGA
* *
23060854 CCCTCAAACTTCCAAAAATTATATTTTAACCCTCAAACTTTTC-AATTCATATTTTAACCCCCAA
1 CCCT-AAACTTCCAAAAATTATATTTTAACCCTCAAACTTCTCAAATT-ACATTTTAACCCCCAA
*
23060918 ACTTCACAAAAATTACATTTTTGC
64 ACTTCACAAAAATTACATTTTTGA
*
23060942 CCCTAAACTTCAAAAAATTA
1 CCCTAAACTTCCAAAAATTA
23060962 CCATTTTACT
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
86 4 0.04
87 42 0.46
88 9 0.10
89 33 0.36
90 4 0.04
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (87 bp):
CCCTAAACTTCCAAAAATTATATTTTAACCCTCAAACTTCTCAAATTACATTTTAACCCCCAAAC
TTCACAAAAATTACATTTTTGA
Found at i:23061053 original size:28 final size:29
Alignment explanation
Indices: 23061014--23061113 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
23061004 AACTTTCTAG
23061014 AAATTACCATTTTACCCTCGAATGTCCGA
1 AAATTACCATTTTACCCTCGAATGTCCGA
* * * ***
23061043 AAATT-CCATTTCTAACCTCAAAATTTAAAA
1 AAATTACCATTT-TACCCTC-GAATGTCCGA
* * *
23061073 AAATTATCATTTTACCCACGGATGTCCGA
1 AAATTACCATTTTACCCTCGAATGTCCGA
23061102 AAATT-CCATTTT
1 AAATTACCATTTT
23061114 TAACCTCTAA
Statistics
Matches: 52, Mismatches: 16, Indels: 7
0.69 0.21 0.09
Matches are distributed among these distances:
28 12 0.23
29 20 0.38
30 15 0.29
31 5 0.10
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (29 bp):
AAATTACCATTTTACCCTCGAATGTCCGA
Found at i:23061077 original size:59 final size:59
Alignment explanation
Indices: 23060953--23061120 Score: 196
Period size: 59 Copynumber: 2.9 Consensus size: 59
23060943 CCTAAACTTC
* * ** * * *
23060953 AAAAAATTACCATTTTA-CTTTGGATGTCC-AAAAAACCATTTTTTGACCTCAAACTTTC
1 AAAAAATTACCATTTTACCCTCGGATGTCCGAAAATTCCA-TTTTTAACCTCAAAATTTA
* * * *
23061011 TAGAAATTACCATTTTACCCTCGAATGTCCGAAAATTCCATTTCTAACCTCAAAATTTA
1 AAAAAATTACCATTTTACCCTCGGATGTCCGAAAATTCCATTTTTAACCTCAAAATTTA
* *
23061070 AAAAAATTATCATTTTACCCACGGATGTCCGAAAATTCCATTTTTAACCTC
1 AAAAAATTACCATTTTACCCTCGGATGTCCGAAAATTCCATTTTTAACCTC
23061121 TAATTTTTCA
Statistics
Matches: 91, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
58 15 0.16
59 69 0.76
60 7 0.08
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.35
Consensus pattern (59 bp):
AAAAAATTACCATTTTACCCTCGGATGTCCGAAAATTCCATTTTTAACCTCAAAATTTA
Found at i:23071720 original size:209 final size:209
Alignment explanation
Indices: 23071353--23072024 Score: 823
Period size: 209 Copynumber: 3.2 Consensus size: 209
23071343 AAACAACGAG
* * * * * * * *
23071353 GCGGTCGTCTTCCTGATGAGATAC-AGAGAAGTATACCAACTCGAGGAAACCATGCTCAAAGTGA
1 GCGGTCATCTTCCTGATGAGATACTA-AGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGA
* * * *
23071417 GCGAATCTTTGAACCCCAGCTTCCCGATGAGATACTGAGAAGCAGTTTGAAGTAATAAAATGGTT
65 GCGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGAAATAAAATGGTT
* * * *
23071482 AGCTTCCTGATAAGATACTAAGAAGCGGACCAAATTCGTCTTCCTGATGAGATACTGAGAAGCGG
130 CGCTTCCTGATGAGATACTGAGAAGCGGACCAGATTCGTCTTCCTGATGAGATACTGAGAAGCGG
23071547 ATTGAAACAAGTGAT
195 ATTGAAACAAGTGAT
* * * *
23071562 GCGATCATCTTCCTGATGAGGTACTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCTAAGTGAG
1 GCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAG
* * * **
23071627 CAAATCTTCGAACCCCAACTTTTTGATGAGATACTGAGAAGCAGGTCGAAGAAATAAAATGGTTC
66 CGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGAAATAAAATGGTTC
* *
23071692 GCTTCCTGATGAGATACTGAGAAGCGGACCAGATTCGTCTTCCTGATTAGATACAGAGAAGCGGA
131 GCTTCCTGATGAGATACTGAGAAGCGGACCAGATTCGTCTTCCTGATGAGATACTGAGAAGCGGA
23071757 TTGAAACAAGTGAT
196 TTGAAACAAGTGAT
* * * * *
23071771 GCGGTCATCTTCTTGATGAGGTACTAAGAAGAAGACCAAATCAATGAAGCTAGGCTCAAAGTAAG
1 GCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAG
* * * * *
23071836 CGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAAAAGTAGGTCTAAGCAATAAAACGGTTA
66 CGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGAAATAAAATGGTT-
* * * * * * *
23071901 C-CTTCTTGATGAGATA-TAGAGAAGTGAACCAGATCCATCTT-CTGGATGAGACA-TAGAAAAG
130 CGCTTCCTGATGAGATACT-GAGAAGCGGACCAGATTCGTCTTCCT-GATGAGATACT-GAGAAG
* **
23071962 TGGATCAAAACAAGTGAT
192 CGGATTGAAACAAGTGAT
* *
23071980 GCGGTCATCTTCCTGATGAGATATTAAGAAGTAGACCAAATCAAT
1 GCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAT
23072025 AACACCAAAC
Statistics
Matches: 398, Mismatches: 60, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
208 3 0.01
209 394 0.99
210 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (209 bp):
GCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAG
CGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGAAATAAAATGGTTC
GCTTCCTGATGAGATACTGAGAAGCGGACCAGATTCGTCTTCCTGATGAGATACTGAGAAGCGGA
TTGAAACAAGTGAT
Found at i:23081074 original size:25 final size:25
Alignment explanation
Indices: 23081036--23081092 Score: 89
Period size: 24 Copynumber: 2.3 Consensus size: 25
23081026 TTTAAAATAT
* *
23081036 TTTTTTTTTATTTTTA-AGATTAAA
1 TTTTTTTTAATTTTTAGAAATTAAA
23081060 TTTTTTTTAATTTTTAGAAATTAAA
1 TTTTTTTTAATTTTTAGAAATTAAA
23081085 TTTTTTTT
1 TTTTTTTT
23081093 TCTCAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (25 bp):
TTTTTTTTAATTTTTAGAAATTAAA
Found at i:23081683 original size:30 final size:30
Alignment explanation
Indices: 23081643--23081704 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
23081633 AATTTATATA
*
23081643 TTTATAATTTTTAAAGGATTAAATTA-AATT
1 TTTATAA-TTTTAAAGGATCAAATTATAATT
* *
23081673 TTTATTATTTTAAAGGGTCAAATTATAATT
1 TTTATAATTTTAAAGGATCAAATTATAATT
23081703 TT
1 TT
23081705 ACAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (30 bp):
TTTATAATTTTAAAGGATCAAATTATAATT
Found at i:23081716 original size:14 final size:13
Alignment explanation
Indices: 23081692--23081748 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 13
23081682 TTAAAGGGTC
*
23081692 AAATTATAATTTT
1 AAATTAAAATTTT
23081705 ACAATTAAAATTTT
1 A-AATTAAAATTTT
23081719 AAAATTTTAAAAATTTT
1 -AAA--TT-AAAATTTT
*
23081736 AAATGAAAATTTT
1 AAATTAAAATTTT
23081749 TCATTTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 9 0.24
14 14 0.38
15 1 0.03
16 5 0.14
17 8 0.22
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
AAATTAAAATTTT
Found at i:23081720 original size:8 final size:8
Alignment explanation
Indices: 23081709--23081738 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
23081699 AATTTTACAA
23081709 TTAAAATT
1 TTAAAATT
23081717 TTAAAATT
1 TTAAAATT
23081725 TTAAAAATT
1 TT-AAAATT
23081734 TTAAA
1 TTAAA
23081739 TGAAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TTAAAATT
Found at i:23083313 original size:66 final size:66
Alignment explanation
Indices: 23083139--23083313 Score: 167
Period size: 66 Copynumber: 2.7 Consensus size: 66
23083129 GAAAAATCAA
* * *
23083139 ATATCGAATCTTCCCAAGCTCCTGAACGAGATA-TTAGGTCTTCTCAATCCCAAGCCCTTGAACG
1 ATATCGAGTCTTCCCAAGCTCCTGAACGAGATATTTA-GTATTCTCAATCCCAAGCCCTTAAACG
*
23083203 CG
65 AG
* * * * * * * * * *
23083205 ATATTGAGTCTTTCCAAACTCCTGATTC-AGGTATTAAATATTCTCAATCTCAAGATCC-TAAAT
1 ATATCGAGTCTTCCCAAGCTCCTGA-ACGAGATATTTAGTATTCTCAATCCCAAG-CCCTTAAAC
23083268 GAG
64 GAG
*
23083271 ATATCGAGTCTTCCCAAGCTCTTGAACGAGATATTTAGTATTC
1 ATATCGAGTCTTCCCAAGCTCCTGAACGAGATATTTAGTATTC
23083314 CCAAGTTATT
Statistics
Matches: 83, Mismatches: 22, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
65 1 0.01
66 77 0.93
67 5 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (66 bp):
ATATCGAGTCTTCCCAAGCTCCTGAACGAGATATTTAGTATTCTCAATCCCAAGCCCTTAAACGA
G
Found at i:23089339 original size:5 final size:5
Alignment explanation
Indices: 23089329--23089364 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
23089319 TAGGGTTGTG
*
23089329 GAAAT GAAAT GAAAT GAAAT GAGAT GAAAT GGAAAT
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT -GAAAT
23089365 TTAAATTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (5 bp):
GAAAT
Found at i:23089349 original size:15 final size:16
Alignment explanation
Indices: 23089327--23089364 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
23089317 TTTAGGGTTG
23089327 TGGAAATGAAATGAAA
1 TGGAAATGAAATGAAA
*
23089343 T-GAAATGAGATGAAA
1 TGGAAATGAAATGAAA
23089358 TGGAAAT
1 TGGAAAT
23089365 TTAAATTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (16 bp):
TGGAAATGAAATGAAA
Found at i:23089887 original size:35 final size:31
Alignment explanation
Indices: 23089808--23089887 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 31
23089798 AGTGGTTTAC
23089808 TAATTTTTTATA-TTTATTATTTTATAAAAAG
1 TAATTTTTTATATTTTATTA-TTTATAAAAAG
*
23089839 TAATTTTAT-TATTTTATTGA-TTATGAAAGAAG
1 TAATTTTTTATATTTTATT-ATTTAT-AAA-AAG
23089871 TTTAATTTTTTATATTT
1 --TAATTTTTTATATTT
23089888 ATTTATAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
30 6 0.15
31 17 0.43
32 4 0.10
34 8 0.20
35 5 0.12
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (31 bp):
TAATTTTTTATATTTTATTATTTATAAAAAG
Found at i:23097222 original size:18 final size:19
Alignment explanation
Indices: 23097187--23097239 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
23097177 ATTTTTTTAA
* *
23097187 AATATAATTTATAATTTTT
1 AATATAATTTTTATTTTTT
23097206 -ATATAATTTTTATTTTTT
1 AATATAATTTTTATTTTTT
23097224 GAATATATATTTTTAT
1 -AATATA-ATTTTTAT
23097240 AAATTTTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 16 0.55
20 5 0.17
21 8 0.28
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
AATATAATTTTTATTTTTT
Found at i:23102325 original size:18 final size:18
Alignment explanation
Indices: 23102304--23102340 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23102294 TGTAAAATAG
23102304 AAATGGAAATAA-AAATGA
1 AAAT-GAAATAAGAAATGA
23102322 AAATGAAATAAGAAATGA
1 AAATGAAATAAGAAATGA
23102340 A
1 A
23102341 TTTATTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (18 bp):
AAATGAAATAAGAAATGA
Found at i:23102518 original size:26 final size:26
Alignment explanation
Indices: 23102482--23102534 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
23102472 AAATATATTT
*
23102482 TCTTCATAATTTTACTAGGGGTAAAA
1 TCTTCATAATTTTACTAGGAGTAAAA
*
23102508 TCTTTATAATTTTACTAGGAGTAAAA
1 TCTTCATAATTTTACTAGGAGTAAAA
23102534 T
1 T
23102535 TGGGATGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (26 bp):
TCTTCATAATTTTACTAGGAGTAAAA
Found at i:23109004 original size:14 final size:13
Alignment explanation
Indices: 23108981--23109011 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
23108971 ACTTTTCAAC
23108981 AAAAAAATAAAAT
1 AAAAAAATAAAAT
23108994 AAAATAAATAAAAT
1 AAAA-AAATAAAAT
23109008 AAAA
1 AAAA
23109012 CATCAGATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:23110055 original size:12 final size:12
Alignment explanation
Indices: 23110034--23110063 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23110024 AAATTATTTT
*
23110034 TTAATGAAAATA
1 TTAATTAAAATA
23110046 TTAATTAAAATA
1 TTAATTAAAATA
23110058 TTAATT
1 TTAATT
23110064 TTTTTAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (12 bp):
TTAATTAAAATA
Found at i:23110201 original size:23 final size:23
Alignment explanation
Indices: 23110181--23110231 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
23110171 AAAAAAATCA
23110181 AAAATAAA-AT-AAAATTCAAAT
1 AAAATAAACATAAAAATTCAAAT
*
23110202 TAAATAAACATAAAAATTCAAA-
1 AAAATAAACATAAAAATTCAAAT
23110224 AAAA-AAAC
1 AAAATAAAC
23110232 TAGCAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 11 0.42
22 5 0.19
23 10 0.38
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAATAAACATAAAAATTCAAAT
Found at i:23110218 original size:17 final size:16
Alignment explanation
Indices: 23110169--23110219 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
23110159 ATTTAAAATT
23110169 TTAAA-AAAATCAAAAA
1 TTAAATAAAAT-AAAAA
* **
23110185 TAAAATAAAATTCAAA
1 TTAAATAAAATAAAAA
23110201 TTAAATAAACATAAAAA
1 TTAAATAAA-ATAAAAA
23110218 TT
1 TT
23110220 CAAAAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
TTAAATAAAATAAAAA
Found at i:23110443 original size:16 final size:16
Alignment explanation
Indices: 23110424--23110469 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
23110414 GAAAAAAAGA
23110424 TGAAAGGATAAAAAAT
1 TGAAAGGATAAAAAAT
23110440 TGAACAGGA-AAAAAAT
1 TGAA-AGGATAAAAAAT
*
23110456 TAAAAGGATGAAAA
1 TGAAAGGAT-AAAA
23110470 TATAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 4 0.15
16 14 0.54
17 8 0.31
ACGTcount: A:0.63, C:0.02, G:0.20, T:0.15
Consensus pattern (16 bp):
TGAAAGGATAAAAAAT
Found at i:23110463 original size:15 final size:17
Alignment explanation
Indices: 23110426--23110469 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
23110416 AAAAAAGATG
23110426 AAAGGATAAAAAATTGA
1 AAAGGATAAAAAATTGA
*
23110443 ACAGGA-AAAAAATT-A
1 AAAGGATAAAAAATTGA
23110458 AAAGGATGAAAA
1 AAAGGAT-AAAA
23110470 TATAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.26
16 8 0.35
17 9 0.39
ACGTcount: A:0.66, C:0.02, G:0.18, T:0.14
Consensus pattern (17 bp):
AAAGGATAAAAAATTGA
Found at i:23113403 original size:10 final size:10
Alignment explanation
Indices: 23113388--23113412 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23113378 ACATAGATTA
23113388 AATTATAATT
1 AATTATAATT
23113398 AATTATAATT
1 AATTATAATT
23113408 AATTA
1 AATTA
23113413 ACCAATTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AATTATAATT
Found at i:23116444 original size:22 final size:22
Alignment explanation
Indices: 23116414--23116456 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23116404 TGGTTCATAA
*
23116414 TTTCCTCATTTGTCAATTTTCG
1 TTTCATCATTTGTCAATTTTCG
* *
23116436 TTTCATCATTTTTCATTTTTC
1 TTTCATCATTTGTCAATTTTC
23116457 AAATGGATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.21, G:0.05, T:0.60
Consensus pattern (22 bp):
TTTCATCATTTGTCAATTTTCG
Found at i:23131560 original size:123 final size:123
Alignment explanation
Indices: 23131336--23131581 Score: 402
Period size: 123 Copynumber: 2.0 Consensus size: 123
23131326 ATTTGGTTAG
* * **
23131336 AAACCAATAAAACAAATGAACCAAGGGTATATAAAAATATTGGATTTTCATTTATGTTCTCTCCA
1 AAACCAATAAAACAAATGAACCAAAGATATATAAAAATATTAAATTTTCATTTATGTTCTCTCCA
* * *
23131401 TAGTTGTAAACCACTATTGGGAAATTCTTGTCAAGTATTGGGTGAGGGAGTGTATCAC
66 TAGTTGTAAACCACTATTGGGAAATTCTTGTCAAGTAATGGGTGAGAGAGTGCATCAC
*
23131459 AAACCAATAGAACAAATGAACCAAAGATATATAAAAATATTAAATTTTCATTTATGTTCTCTCCA
1 AAACCAATAAAACAAATGAACCAAAGATATATAAAAATATTAAATTTTCATTTATGTTCTCTCCA
* *
23131524 TAGTTGTAAATCACTATTGGGAAATTCTTGTGAAGTAATGGGTGAGAGAGTGCATCAC
66 TAGTTGTAAACCACTATTGGGAAATTCTTGTCAAGTAATGGGTGAGAGAGTGCATCAC
23131582 TTGTCAGAGG
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (123 bp):
AAACCAATAAAACAAATGAACCAAAGATATATAAAAATATTAAATTTTCATTTATGTTCTCTCCA
TAGTTGTAAACCACTATTGGGAAATTCTTGTCAAGTAATGGGTGAGAGAGTGCATCAC
Found at i:23139291 original size:21 final size:21
Alignment explanation
Indices: 23139248--23139292 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
23139238 TTACCCCAAA
* *
23139248 CCCTCAAACCTTTTTACTTTT
1 CCCTCAAAACTTTTTACTCTT
23139269 CCCTCAAAAC-TTTTACTCCTT
1 CCCTCAAAACTTTTTACT-CTT
23139290 CCC
1 CCC
23139293 ACTTCCCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (21 bp):
CCCTCAAAACTTTTTACTCTT
Found at i:23140125 original size:21 final size:21
Alignment explanation
Indices: 23140096--23140137 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23140086 GATACCTGAT
*
23140096 AAAAGGTATCGATACTTTTTG
1 AAAAAGTATCGATACTTTTTG
*
23140117 AAAAAGTATCGATATTTTTTG
1 AAAAAGTATCGATACTTTTTG
23140138 TCATTGTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (21 bp):
AAAAAGTATCGATACTTTTTG
Found at i:23160622 original size:3 final size:3
Alignment explanation
Indices: 23160614--23160639 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23160604 TTGTAAATTA
23160614 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
23160640 AGCAACCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:23174831 original size:642 final size:641
Alignment explanation
Indices: 23173562--23174848 Score: 1864
Period size: 642 Copynumber: 2.0 Consensus size: 641
23173552 GATATTATCA
* * * *
23173562 GATGTGAGTGAAAGATTGCGACATGATGAAAAAACATTTAGAACCAAGTACGGACATTATGAGTT
1 GATGTGAGTAAAAGATTGCAACATGATGAAAAAACATTCAGAACCAAGTACGGACATTATAAGTT
* * * *
23173627 TTTGGTAATGTCGTTCGGGTTTACTAACGCCCCAACAATATTTATGGATCTAATGAACCGAGTGT
66 TTTGGTAATATCGTTCGGGTTGACTAACGCCCCAACAACATTTATGAATCTAATGAACCGAGTGT
* * *
23173692 TCCAGCCTCAGTTAGATAGATTTGTGGTTGTATTTCTCGATGACATACTGATTCTTTCTAGAATA
131 TCCAGCCTCAGTCAGATAGATTTGTGGTTGTATTTATCGATGACATACTGATTCTTTCTAGAACA
* * * ** * * *
23173757 TAGTCAAAGCATACTCAGCATTTGAGAAAGGTATTGTAGATTTTGCGAGAAAAGTAGTTGTAAGC
196 GAGTCAAAGCATAATCAGCATCTGAGAAAGGTATTACAAATTTTGCAAGAAAAATAGTTGTAAGC
* *
23173822 GAAATTCAGCAAATGCGAGTTCTAGCTTCGAGAGGTTGAATTTTTGGGTCATGTGGTATCCGTAA
261 GAAATTCAGCAAATGCGAGTTCTAGCTTCAAGAGGTTGAATTTTTGGGTCATGTAGTATCCGTAA
*
23173887 AAGGAATACGAGTTAATCCGAGAAAAATTTTAGCTATTCTCGATTGGAAGGTTTCGAAGAATGTT
326 AAGGAATACGAGTTAATCCGAGAAAAATTTTAGCTATTCTCGATTGGAAGGTTCCGAAGAATGTT
* **
23173952 TCTGAGGTACGTAGCTTTCTGGGATTAGCAAGTTATTACCATCGATTTGTGAAAATTTTCTCTAT
391 TCTGAGGTACGTAGCCTTCTAAGATTAGCAAGTTATTACCATCGATTTGTGAAAATTTTCTCTAT
* * * *
23174017 TATATTTTTGTCGTTGACAAAGTTGCTACAAAAGAACATTCATATTGTTTGGTCAGAGAAGTGCC
456 TATATCTTTGCCATTGACAAAGTTGCTACAAAAGAACATTCAGATTGTTTGGTCAGAGAAGTGCC
* * *
23174082 AACAGAGTTTTGATCAGCTCAAAAAACTGTTAACGGAAGCTCCAGTACTGTCGTAGCCTGAATCA
521 AACAGAGTTTTGATCAGCTCAAAAAACTGTTAACGGAAGCCCCAGTACTGACGCAGCCTGAATCA
* *
23174147 GGAAAGGAATTTGTTATTTACAGTGACGCGTCTTTAAATGGTTTGGGTTGTGTTTT
586 GGAAAGGAATTTGTTATTTACAGTGACGCGTCGTTAAATGGTTTAGGTTGTGTTTT
* ** * *
23174203 GATGTGAGTAAAAGATTTCAATGTGATGAAAACAACATTCAGAACCAGGTACGGACATTGTAAGT
1 GATGTGAGTAAAAGATTGCAACATGATGAAAA-AACATTCAGAACCAAGTACGGACATTATAAGT
* * *
23174268 TTTTGGTAATATCGTTCGGGTTGACTAACGCCCCGACAGCATTTATGAATCTGATGAACCGAGTG
65 TTTTGGTAATATCGTTCGGGTTGACTAACGCCCCAACAACATTTATGAATCTAATGAACCGAGTG
*
23174333 TTCTAGCCTCAGTCAGATAGATTTGTGGTTGTATTTATCGATGACATACTGATT-TATTCTAGAA
130 TTCCAGCCTCAGTCAGATAGATTTGTGGTTGTATTTATCGATGACATACTGATTCT-TTCTAGAA
* * *
23174397 CAGAGTCAGAGCATAATCGGCATCTGATAAAGGTATTACAAATTTTGCAAGAAAAATAGTTGTAC
194 CAGAGTCAAAGCATAATCAGCATCTGAGAAAGGTATTACAAATTTTGCAAGAAAAATAGTTGTA-
* * *
23174462 A-CGAAATTCAGCAAATGCGAGTTTTGGCTTCAAGATGTTGGAA-TTTTGGGTCATGTAGTATCC
258 AGCGAAATTCAGCAAATGCGAGTTCTAGCTTCAAGAGGTT-GAATTTTTGGGTCATGTAGTATCC
* * * *
23174525 GTAGAAGGAATACGAGTTGATCCGAGCAAAATTTTAGCTATTCTTGATTGGAAGGTTCCGAAGAA
322 GTAAAAGGAATACGAGTTAATCCGAGAAAAATTTTAGCTATTCTCGATTGGAAGGTTCCGAAGAA
* * * *
23174590 TGTTTTTGAGGTACGTAGCCTTCTAAGATTAGTAGGTTATTACCGTC-AGTTTGTGAAAATTTTC
387 TGTTTCTGAGGTACGTAGCCTTCTAAGATTAGCAAGTTATTACCATCGA-TTTGTGAAAATTTTC
**
23174654 TCTATTATATCTTTGCCATTGATGAAGTTGCTA-AAGAAGAACATTCAGATTGTTTGGTCAGAGA
451 TCTATTATATCTTTGCCATTGACAAAGTTGCTACAA-AAGAACATTCAGATTGTTTGGTCAGAGA
* * * * *
23174718 AGTGCCAATAGAGTTTTGATCAGCTCAAGAAATTGTTAACGGAAGCCCCGGTACTGACGCAGCTT
515 AGTGCCAACAGAGTTTTGATCAGCTCAAAAAACTGTTAACGGAAGCCCCAGTACTGACGCAGCCT
* * * * *
23174783 GAATCAGGAAAGGAATTTGTTGTTTTCATTGATGCGTCGTTGAATGGTTTAGGTTGTGTTTT
580 GAATCAGGAAAGGAATTTGTTATTTACAGTGACGCGTCGTTAAATGGTTTAGGTTGTGTTTT
23174845 GATG
1 GATG
23174849 CAAGCCGAGA
Statistics
Matches: 571, Mismatches: 69, Indels: 11
0.88 0.11 0.02
Matches are distributed among these distances:
641 31 0.05
642 536 0.94
643 4 0.01
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (641 bp):
GATGTGAGTAAAAGATTGCAACATGATGAAAAAACATTCAGAACCAAGTACGGACATTATAAGTT
TTTGGTAATATCGTTCGGGTTGACTAACGCCCCAACAACATTTATGAATCTAATGAACCGAGTGT
TCCAGCCTCAGTCAGATAGATTTGTGGTTGTATTTATCGATGACATACTGATTCTTTCTAGAACA
GAGTCAAAGCATAATCAGCATCTGAGAAAGGTATTACAAATTTTGCAAGAAAAATAGTTGTAAGC
GAAATTCAGCAAATGCGAGTTCTAGCTTCAAGAGGTTGAATTTTTGGGTCATGTAGTATCCGTAA
AAGGAATACGAGTTAATCCGAGAAAAATTTTAGCTATTCTCGATTGGAAGGTTCCGAAGAATGTT
TCTGAGGTACGTAGCCTTCTAAGATTAGCAAGTTATTACCATCGATTTGTGAAAATTTTCTCTAT
TATATCTTTGCCATTGACAAAGTTGCTACAAAAGAACATTCAGATTGTTTGGTCAGAGAAGTGCC
AACAGAGTTTTGATCAGCTCAAAAAACTGTTAACGGAAGCCCCAGTACTGACGCAGCCTGAATCA
GGAAAGGAATTTGTTATTTACAGTGACGCGTCGTTAAATGGTTTAGGTTGTGTTTT
Found at i:23181277 original size:15 final size:16
Alignment explanation
Indices: 23181259--23181296 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
23181249 ATATTTAATA
23181259 ATTTAAT-AATTTTTT
1 ATTTAATAAATTTTTT
*
23181274 ATTTATTAAATTTTTT
1 ATTTAATAAATTTTTT
*
23181290 ATATAAT
1 ATTTAAT
23181297 TATCTTAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTAATAAATTTTTT
Found at i:23185577 original size:18 final size:19
Alignment explanation
Indices: 23185554--23185590 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23185544 TTCCACTGTC
*
23185554 ATCCACC-TAATTAAATTT
1 ATCCACCATAATCAAATTT
23185572 ATCCACCATAATCAAATTT
1 ATCCACCATAATCAAATTT
23185591 GTTATTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCCACCATAATCAAATTT
Found at i:23187045 original size:99 final size:99
Alignment explanation
Indices: 23186918--23187113 Score: 383
Period size: 99 Copynumber: 2.0 Consensus size: 99
23186908 CACTATTTTC
*
23186918 GAATTTCGAGTACTAAATTCATGAACCAATAATCAATCAAAATTGATTAATTTTTCAGTGGAGAA
1 GAATTCCGAGTACTAAATTCATGAACCAATAATCAATCAAAATTGATTAATTTTTCAGTGGAGAA
23186983 AATTAATTCTCTCTATAAGATAAGAAACCAAATT
66 AATTAATTCTCTCTATAAGATAAGAAACCAAATT
23187017 GAATTCCGAGTACTAAATTCATGAACCAATAATCAATCAAAATTGATTAATTTTTCAGTGGAGAA
1 GAATTCCGAGTACTAAATTCATGAACCAATAATCAATCAAAATTGATTAATTTTTCAGTGGAGAA
23187082 AATTAATTCTCTCTATAAGATAAGAAACCAAA
66 AATTAATTCTCTCTATAAGATAAGAAACCAAA
23187114 ATTTAGTTCT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (99 bp):
GAATTCCGAGTACTAAATTCATGAACCAATAATCAATCAAAATTGATTAATTTTTCAGTGGAGAA
AATTAATTCTCTCTATAAGATAAGAAACCAAATT
Done.